Method and system for characterizing microorganism-associated sleep-related conditions

ABSTRACT

Embodiments of a method and/or system for characterizing one or more sleep-related conditions can include determining a microorganism dataset associated with a set of subjects; and/or performing a characterization process associated with the one or more sleep-related conditions, based on the microorganism dataset, where performing the characterization process can additionally or alternatively include performing a sleep-related characterization process for the one or more sleep-related conditions, and/or determining one or more therapies S140.

CROSS-REFERENCE TO RELATED APPLICATIONS

This application is a continuation-in-part of U.S. application Ser. No.15/606,743, filed 26 May 2017, which is a continuation of U.S.application Ser. No. 14/919,614, filed 21 Oct. 2017, which claims thebenefit of U.S. Provisional Application Ser. No. 62/066,369 filed 21Oct. 2014, U.S. Provisional Application Ser. No. 62/087,551 filed 4 Dec.2014, U.S. Provisional Application Ser. No. 62/092,999 filed 17 Dec.2014, U.S. Provisional Application Ser. No. 62/147,376 filed 14 Apr.2015, U.S. Provisional Application Ser. No. 62/147,212 filed 14 Apr.2015, U.S. Provisional Application Ser. No. 62/147,362 filed 14 Apr.2015, U.S. Provisional Application Ser. No. 62/146,855 filed 13 Apr.2015, and U.S. Provisional Application Ser. No. 62/206,654 filed 18 Aug.2015, which are each incorporated in its entirety herein by thisreference.

This application additionally claims the benefit of U.S. ProvisionalApplication Ser. No. 62/514,356 filed 2 Jun. 2017 and U.S. ProvisionalApplication Ser. No. 62/515,396 filed 5 Jun. 2017, which are each hereinincorporated in their entirety by this reference.

TECHNICAL FIELD

The disclosure generally relates to genomics and microbiology.

BACKGROUND

A microbiome can include an ecological community of commensal,symbiotic, and pathogenic microorganisms that are associated with anorganism. Characterization of the human microbiome is a complex process.The human microbiome includes over 10 times more microbial cells thanhuman cells, but characterization of the human microbiome is still innascent stages such as due to limitations in sample processingtechniques, genetic analysis techniques, and resources for processinglarge amounts of data. Present knowledge has clearly established therole of microbiome associations with multiple health conditions, and hasbecome an increasingly appreciated mediator of host genetic andenvironmental factors on human disease development. The microbiome issuspected to play at least a partial role in a number ofhealth/disease-related states. Further, the microbiome may mediateeffects of environmental factors on human, plant, and/or animal health.Given the profound implications of the microbiome in affecting a user'shealth, efforts related to the characterization of the microbiome, thegeneration of insights from the characterization, and the generation oftherapeutics configured to rectify states of dysbiosis should bepursued. Methods and systems for analyzing the microbiomes of humansand/or providing therapeutic measures based on gained insights have,however, left many questions unanswered.

As such, there is a need in the field of microbiology for a new anduseful method and/or system for characterizing, monitoring, diagnosing,and/or intervening in one or more microorganism-related healthconditions, such as for individualized and/or population-wide use.

BRIEF DESCRIPTION OF THE FIGURES

FIGS. 1A-1B show a flowchart representation of variations of anembodiment of a method;

FIG. 2 depicts embodiments of a method and system;

FIG. 3 depicts a variation of a process for generation of acharacterization model in an embodiment of a method;

FIG. 4 depicts variations of mechanisms by which probiotic-basedtherapies operate in an embodiment of a method;

FIG. 5 depicts variations of sample processing in an embodiment of amethod;

FIG. 6 depicts examples of notification provision;

FIG. 7 depicts a schematic representation of variations of an embodimentof the method;

FIGS. 8A-8C depicts variations of performing characterization processeswith models;

FIG. 9 depicts promoting a therapy in an embodiment of a method.

DESCRIPTION OF THE EMBODIMENTS

The following description of the embodiments is not intended to limitthe embodiments, but rather to enable any person skilled in the art tomake and use.

1. Overview

As shown in FIGS. 1A-1B, embodiments of a method 100 for characterizingone or more sleep-related conditions can include: determining amicroorganism dataset (e.g., microorganism sequence dataset, microbiomecomposition diversity dataset such as based upon a microorganismsequence dataset, microbiome functional diversity dataset such as basedupon a microorganism sequence dataset, etc.) associated with a set ofsubjects S110; and/or performing a characterization process (e.g.,pre-processing, feature determination, feature processing, sleep-relatedcharacterization model processing, etc.) associated with the one or moresleep-related conditions, based on the microorganism dataset (e.g.,based on microbiome composition features and/or microbiome functionalfeatures derived from the microorganism dataset and associated with theone or more sleep-related conditions; etc.) S130, where performing thecharacterization process can additionally or alternatively includeperforming a sleep-related characterization process for the one or moresleep-related conditions S135, and/or determining one or more therapies(e.g., determining therapies for preventing, ameliorating, reducing therisk of, and/or otherwise improving the one or more sleep-relatedconditions, etc.) S140.

Embodiments of the method 100 can additionally or alternatively includeone or more of: processing supplementary data associated with (e.g.,informative of; describing; indicative of; correlated with, etc.) one ormore sleep-related conditions S120; processing one or more biologicalsamples associated with a user (e.g., subject, human, animal, patient;etc.) S150; determining, with one or more characterization processes, asleep-related characterization for the user for one or moresleep-related conditions, based on a user microorganism dataset (e.g.,user microorganism sequence dataset; user microbiome compositiondataset; user microbiome function dataset; user microbiome featuresderived from the user microorganism dataset, where the user microbiomefeatures can correspond to feature values for the microbiome featuresdetermined from one or more characterization processes; etc.) associatedwith a biological sample of the user S160; facilitating therapeuticintervention for the one or more sleep-related conditions for the user(e.g., based upon the sleep-related characterization and/or a therapymodel; etc.) S170; monitoring effectiveness of one or more therapiesand/or monitoring other suitable components (e.g., microbiomecharacteristics, etc.) for the user (e.g., based upon processing aseries of biological samples from the user), over time (e.g., such as toassess user microbiome characteristics such as user microbiomecomposition features and/or functional features associated with thetherapy, for the user over time, etc.) S180; and/or any other suitableprocesses.

Embodiments of the method 100 and/or system 200 can function tocharacterize (e.g., assess, evaluate, diagnose, describe, etc.) one ormore sleep-related conditions (e.g., characterizing the sleep-relatedconditions themselves, such as determining microbiome featurescorrelated with and/or otherwise associated with the sleep-relatedconditions; characterizing one or more sleep-related conditions for oneor more users, such as determining propensity metrics for the one ormore sleep-related conditions for the one or more users; etc.). In anexample, the method 100 can include: determining a microorganism datasetassociated with a set of subjects (e.g., including subjects with one ormore sleep-related conditions, subjects without the one or moresleep-related conditions, etc.), based on microorganism nucleic acidsfrom biological samples associated with the set of subjects, where themicroorganism nucleic acids are associated with one or moresleep-related conditions; processing (e.g., collecting, etc.), for theset of subjects, supplementary data associated with the one or moresleep-related conditions; determining microbiome features (e.g., atleast one of a set of microbiome composition features and a set ofmicrobiome functional features, etc.) associated with the set ofsubjects, based on the microorganism dataset (and/or the supplementarydata and/or other suitable data); generating a sleep-relatedcharacterization model (e.g., for determining sleep-relatedcharacterizations; a therapy model; etc.) based on the supplementarydata and the microbiome features, where the sleep-relatedcharacterization model is associated with the one or more sleep-relatedconditions; determining a sleep-related characterization for a user forthe one or more sleep-related conditions based on the sleep-relatedcharacterization model; and facilitating therapeutic intervention (e.g.,providing a therapy to the user, etc.) for facilitating improvement ofthe one or more sleep-related conditions, based on the sleep-relatedcharacterization. In another example, the method 100 can include:collecting a biological sample from a user (e.g., via sample kitprovision and collection, etc.), where the biological sample includesmicroorganism nucleic acids associated with one or more sleep-relatedconditions; determining a microorganism dataset associated with the userbased on the microorganism nucleic acids of the biological sample (e.g.,based on sample preparation and/or sequencing with the biologicalsample, etc.); determining user microbiome features (e.g., including atleast one of user microbiome composition features and user microbiomefunctional features, based on the microorganism dataset, etc.), wherethe user microbiome features are associated with the one or moresleep-related conditions; determining a sleep-related characterizationfor a user for the one or more sleep-related conditions based on theuser microbiome features; and facilitating therapeutic intervention inrelation to a therapy for the user for facilitating improvement of theone or more sleep-related conditions, based on the sleep-relatedcharacterization.

Additionally or alternatively, embodiments of the method 100 and/orsystem 200 can identify microbiome features and/or other suitable dataassociated with (e.g., positive correlated with, negatively correlatedwith, etc.) one or more sleep-related conditions, such as for use asbiomarkers (e.g., for diagnostic processes, for treatment processes,etc.). In examples, sleep-related characterization can be associatedwith at least one or more of user microbiome composition (e.g.,microbiome composition diversity, etc.), microbiome function (e.g.,microbiome functional diversity, etc.), and/or other suitablemicrobiome-related aspects. In an example, microorganism features (e.g.,describing composition, function, and/or diversity of recognizablepatterns, such as in relation to relative abundance of microorganismsthat are present in a subject's microbiome, such as for subjectsexhibiting one or more sleep-related conditions; etc.) and/ormicroorganism datasets (e.g., from which microbiome features can bederived, etc.) can be used for diagnostics, characterizations,therapeutic intervention facilitation, monitoring, and/or other suitablepurposes, such as by using bioinformatics pipelines, analyticaltechniques, and/or other suitable approaches described herein.Additionally or alternatively, embodiments of the method 100 and/orsystem 200 can function to perform cross-condition analyses for aplurality of sleep-related conditions (e.g., performing characterizationprocesses for a plurality of sleep-related conditions, such asdetermining correlation, covariance, comorbidity, and/or other suitablerelationships between different sleep-related conditions, etc.), such asin the context of characterizing, diagnosing, and/or treating a user.

Additionally or alternatively, embodiments can function to facilitatetherapeutic intervention (e.g., therapy selection; therapy promotionand/or provision; therapy monitoring; therapy evaluation; etc.) for oneor more sleep-related conditions, such as through promotion ofassociated therapies (e.g., in relation to specific physiological sitesgut, skin, nose, mouth, genitals, other suitable physiological sites,other collection sites; therapies determined by therapy models; etc.).Additionally or alternatively, embodiments can function to generatemodels (e.g., sleep-related characterization models such as forphenotypic prediction; therapy models such as for therapy determination;machine learning models such as for feature processing, etc.), such asmodels that can be used to characterize and/or diagnose users based ontheir microbiome (e.g., user microbiome features; as a clinicaldiagnostic; as a companion diagnostic, etc.), and/or that can be used toselect and/or provide therapies for subjects in relation to one or moresleep-related conditions. Additionally or alternatively, embodiments canperform any suitable functionality described herein.

As such, data from populations of subjects (e.g., associated with one ormore sleep-related conditions; positively or negatively correlated withone or more sleep-related conditions; etc.) can be used to characterizesubsequent users, such as for indicating microorganism-related states ofhealth and/or areas of improvement, and/or to facilitate therapeuticintervention (e.g., promoting one or more therapies; facilitatingmodulation of the composition and/or functional diversity of a user'smicrobiome toward one or more of a set of desired equilibrium states,such as states correlated with improved health states associated withone or more sleep-related conditions; etc.), such as in relation to oneor more sleep-related conditions. Variations of the method 100 canfurther facilitate selection, monitoring (e.g., efficacy monitoring,etc.) and/or adjusting of therapies provided to a user, such as throughcollection and analysis (e.g., with sleep-related characterizationmodels) of additional samples from a subject over time (e.g., throughoutthe course of a therapy regimen, through the extent of a user'sexperiences with sleep-related conditions; etc.), across collectionsites, in addition or alternative to processing supplementary data overtime (e.g., sleep-tracking data, etc.), such as for one or moresleep-related conditions. However, data from populations, subgroups,individuals, and/or other suitable entities can be used by any suitableportions of the method 100 and/or system 200 for any suitable purpose.

Embodiments of the method 100 and/or system 200 can preferably determineand/or promote (e.g., provide; present; notify regarding; etc.)characterizations and/or therapies for one or more sleep-relatedconditions, and/or any suitable portions of the method 100 and/or system200 can be performed in relation to sleep-related conditions.Sleep-related conditions can include any one or more of: insomnias(e.g., short sleeping, child insomnia, etc.), hypersomnias (e.g.,narcolepsy, idiopathic hypersomnia, Kleine-Levin syndrome, insufficientsleep syndrome, long sleeping, idiopathic hypersomnia, etc.),sleep-related breathing disorders (e.g., sleep apnea, obstructive sleepapnea, snoring, central sleep apnea, child sleep apnea, infant sleepapnea, sleep-related groaning, catathrenia, hypopnea syndrome, etc.),circadian rhythm-related sleep disorders (e.g., delayed sleep-wakephase, advanced sleep-wake phase, irregular sleep-wake rhythm,non-24-hour sleep-wake rhythm, shift work sleep disorders, jet lag,etc.), parasomnias (e.g., sleepwalking, confusional arousals, sleepterrors, sleep eating disorders, REM sleep behavior disorders, sleepparalysis, nightmares, bedwetting, hallucinations, exploding headsyndrome, sleep talking, etc.), sleep-related movement disorders (e.g.,periodic limb movements, sleep leg cramps, sleep rhythmic movement,bruxism, restless legs syndrome, etc.), dyssomnias, sleeping sickness,nocturia, somniphobia, abnormal sleep behavior disorders, daytimesleepiness disorders, comorbid conditions, and/or any other suitableconditions associated with sleep.

Additionally or alternatively, sleep-related conditions can include oneor more of: diseases, symptoms, causes (e.g., triggers, etc.),disorders, associated risk (e.g., propensity scores, etc.), associatedseverity, behaviors (e.g., physical activity behavior; alcoholconsumption; smoking behaviors; stress-related characteristics; otherpsychological characteristics; sickness; social behaviors; caffeineconsumption; alcohol consumption; sleep habits such as sleep time, waketime, naps, length, quality, sleep phases, consistence, variance and/orother sleep behaviors; other habits; diet-related behaviors; meditationand/or other relaxation behaviors; lifestyle conditions associated withsleep-related conditions; lifestyle conditions affecting sleep quality;lifestyle conditions informative of, correlated with, indicative of,facilitative of, and/or otherwise associated with diagnosis and/ortherapeutic intervention for sleep-related conditions; behaviorsaffecting and/or otherwise associated with sleep and/or sleep-relatedconditions; etc.), environmental factors (e.g., location of sleep; bed,mattress, pillow, blanket, and/or other bedding and/or sleepingenvironment factors; lighting; other visual factors; noise; other audiofactors; touch factors; etc.), demographic-related characteristics(e.g., age, weight, race, gender, etc.), phenotypes (e.g., phenotypesmeasurable for a human, animal, plant, fungi body; phenotypes associatedwith sleep and/or other related aspects, etc.), and/or any othersuitable aspects associated with sleep-related conditions. In examples,one or more sleep-related conditions can include a medical disorderaffecting the sleep patterns of a human, animal, and/or other suitableentity. In an example, one or more sleep-related conditions caninterfere with normal physical, mental, social and/or emotionalfunction. In an example, one or more sleep-related conditions can becharacterized by and/or diagnosed by medical interview, medical history,survey, sensor data, medical exams, data activities including and/orrequiring monitoring individuals as they sleep, other supplementarydata, and/or through any suitable techniques (e.g., techniques availablefor diagnosis for sleep-related conditions, etc.).

Embodiments of the method 100 and/or system 200 can be implemented for asingle user, such as in relation to applying one or more sample handlingprocesses and/or characterization processes for processing one or morebiological samples (e.g., collected across one or more collection sites,etc.) from the user, for sleep-related characterization, facilitatingtherapeutic intervention, and/or for any other suitable purpose.Additionally or alternatively, embodiments can be implemented for apopulation of subjects (e.g., including the user, excluding the user),where the population of subjects can include subjects similar to and/ordissimilar to any other subjects for any suitable type ofcharacteristics (e.g., in relation to sleep-related conditions,demographic characteristics, behaviors, microbiome composition and/orfunction, etc.); implemented for a subgroup of users (e.g., sharingcharacteristics, such as characteristics affecting sleep-relatedcharacterization and/or therapy determination; etc.); implemented forplants, animals, microorganisms, and/or any other suitable entities.Thus, information derived from a set of subjects (e.g., population ofsubjects, set of subjects, subgroup of users, etc.) can be used toprovide additional insight for subsequent users. In a variation, anaggregate set of biological samples is preferably associated with andprocessed for a wide variety of subjects, such as including subjects ofone or more of: different demographic characteristics (e.g., genders,ages, marital statuses, ethnicities, nationalities, socioeconomicstatuses, sexual orientations, etc.), different sleep-related conditions(e.g., health and disease states; different genetic dispositions; etc.),different living situations (e.g., living alone, living with pets,living with a significant other, living with children, etc.), differentdietary habits (e.g., omnivorous, vegetarian, vegan, sugar consumption,acid consumption, caffeine consumption, etc.), different behavioraltendencies (e.g., levels of physical activity, drug use, alcohol use,etc.), different levels of mobility (e.g., related to distance traveledwithin a given time period), and/or any other suitable characteristic(e.g., characteristics influencing, correlated with, and/or otherwiseassociated with microbiome composition and/or function, etc.). Inexamples, as the number of subjects increases, the predictive power ofprocesses implemented in portions of the method 100 and/or system 200can increase, such as in relation to characterizing subsequent users(e.g., with varying characteristics, etc.) based upon their microbiomes(e.g., in relation to different collection sites for samples for theusers, etc.). However, portions of the method 100 and/or system 200 canbe performed and/or configured in any suitable manner for any suitableentity or entities.

Data described herein (e.g., microbiome features, microorganismdatasets, models, sleep-related characterizations, supplementary data,notifications, etc.) can be associated with any suitable temporalindicators (e.g., seconds, minutes, hours, days, weeks, etc.) includingone or more: temporal indicators indicating when the data was collected(e.g., temporal indicators indicating when a sample was collected;etc.), determined, transmitted, received, and/or otherwise processed;temporal indicators providing context to content described by the data(e.g., temporal indicators associated with sleep-relatedcharacterizations, such as where the sleep-related characterizationdescribes the sleep-related conditions and/or user microbiome status ata particular time; etc.); changes in temporal indicators (e.g., changesin sleep-related characterizations over time, such as in response toreceiving a therapy; latency between sample collection, sample analysis,provision of a sleep-related characterization or therapy to a user,and/or other suitable portions of the method 100; etc.); and/or anyother suitable indicators related to time.

Additionally or alternatively, parameters, metrics, inputs, outputs,and/or other suitable data can be associated with value types including:scores (e.g., sleep-related condition propensity scores; featurerelevance scores; correlation scores, covariance scores, microbiomediversity scores, severity scores; etc.), individual values (e.g.,individual sleep-related condition scores, such as condition propensityscores, for different collection sites, etc.), aggregate values, (e.g.,overall scores based on individual microorganism-related scores fordifferent collection sites, etc.), binary values (e.g., presence orabsence of a microbiome feature; presence or absence of a sleep-relatedcondition; etc.), relative values (e.g., relative taxonomic groupabundance, relative microbiome function abundance, relative featureabundance, etc.), classifications (e.g., sleep-related conditionclassifications and/or diagnoses for users; feature classifications;behavior classifications; demographic characteristic classifications;etc.), confidence levels (e.g., associated with microorganism sequencedatasets; with microbiome diversity scores; with other sleep-relatedcharacterizations; with other outputs; etc.), identifiers, values alonga spectrum, and/or any other suitable types of values. Any suitabletypes of data described herein can be used as inputs (e.g., fordifferent analytical techniques, models, and/or other suitablecomponents described herein), generated as outputs (e.g., of differentanalytical techniques, models, etc.), and/or manipulated in any suitablemanner for any suitable components associated with the method 100 and/orsystem 200.

One or more instances and/or portions of the method 100 and/or processesdescribed herein can be performed asynchronously (e.g., sequentially),concurrently (e.g., parallel data processing; concurrent cross-conditionanalysis; multiplex sample processing, such as multiplex amplificationof microorganism nucleic acid fragments corresponding to targetsequences associated with sleep-related conditions; performing sampleprocessing and analysis for substantially concurrently evaluating apanel of sleep-related conditions; computationally determiningmicroorganism datasets, microbiome features, and/or characterizingsleep-related conditions in parallel for a plurality of users; such asconcurrently on different threads for parallel computing to improvesystem processing ability; etc.), in temporal relation (e.g.,substantially concurrently with, in response to, serially, prior to,subsequent to, etc.) to a trigger event (e.g., performance of a portionof the method 100), and/or in any other suitable order at any suitabletime and frequency by and/or using one or more instances of the system200, components, and/or entities described herein. In an example, themethod 100 can include generating a microorganism dataset based onprocessing microorganism nucleic acids of one or more biological sampleswith a bridge amplification substrate of a next generation sequencingplatform (and/or other suitable sequencing system) of a sample handlingsystem, and determining microbiome features and microbiome functionaldiversity features at computing devices operable to communicate with thenext generation sequencing platform. However, the method 100 and/orsystem 200 can be configured in any suitable manner.

2. Benefits.

Microbiome analysis can enable accurate and/or efficientcharacterization and/or therapy provision (e.g., according to portionsof the method 100, etc.) for sleep-related conditions caused by,correlated with, and/or otherwise associated with microorganisms.Specific examples of the technology can overcome several challengesfaced by conventional approaches in characterizing a sleep-relatedconditions and/or facilitating therapeutic intervention. First,conventional approaches can require patients to visit one or more careproviders to receive a characterization and/or a therapy recommendationfor a sleep-related condition (e.g., through diagnostic medicalprocedures such as in-hospital sleep-tracking; etc.), which can amountto inefficiencies and/or health-risks associated with the amount of timeelapsed before diagnosis and/or treatment, with inconsistency inhealthcare quality, and/or with other aspects of care providervisitation. Second, conventional genetic sequencing and analysistechnologies for human genome sequencing can be incompatible and/orinefficient when applied to the microbiome (e.g., where the humanmicrobiome can include over 10 times more microbial cells than humancells; where viable analytical techniques and the means of leveragingthe analytical techniques can differ; where optimal sample processingtechniques can differ, such as for reducing amplification bias; wheredifferent approaches to sleep-related characterizations can be employed;where the types of conditions and correlations can differ; where causesof the associated conditions and/or viable therapies for the associatedconditions can differ; where sequence reference databases can differ;where the microbiome can vary across different body regions of the usersuch as at different collection sites; etc.). Third, the onset ofsequencing technologies (e.g., next-generation sequencing, associatedtechnologies, etc.) has given rise to technological issues (e.g., dataprocessing and analysis issues for the plethora of generated sequencedata; issues with processing a plurality of biological samples in amultiplex manner; information display issues; therapy prediction issues;therapy provision issues, etc.) that would not exist but for theunprecedented advances in speed and data generation associated withsequencing genetic material. Specific examples of the method 100 and/orsystem 200 can confer technologically-rooted solutions to at least thechallenges described above.

First, specific examples of the technology can transform entities (e.g.,users, biological samples, therapy facilitation systems includingmedical devices, etc.) into different states or things. For example, thetechnology can transform a biological sample into components able to besequenced and analyzed to generate microorganism dataset and/ormicrobiome features usable for characterizing users in relation to oneor more sleep-related conditions (e.g., such as through use ofnext-generation sequencing systems, multiplex amplification operations;etc.). In another example, the technology can identify, promote (e.g.,present, recommend, etc.), discourage, and/or provide therapies (e.g.,personalized therapies based on a sleep-related characterization; etc.)and/or otherwise facilitate therapeutic intervention (e.g., facilitatingmodification of a user's microbiome composition, microbiomefunctionality, etc.), which can prevent and/or ameliorate one or moresleep-related conditions, thereby transforming the microbiome and/orhealth of the patient (e.g., improving a health state associated with asleep-related condition; etc.). In another example, the technology cantransform microbiome composition and/or function at one or moredifferent physiological sites of a user (e.g., one or more differentcollection sites, etc.), such as targeting and/or transformingmicroorganisms associated with a gut, nose, skin, mouth, and/or genitalsmicrobiome. In another example, the technology can control therapyfacilitation systems (e.g., dietary systems; automated medicationdispensers; behavior modification systems; diagnostic systems; diseasetherapy facilitation systems; etc.) to promote therapies (e.g., bygenerating control instructions for the therapy facilitation system toexecute; etc.), thereby transforming the therapy facilitation system.

Second, specific examples of the technology can confer improvements incomputer-related technology (e.g., improving computational efficiency instoring, retrieving, and/or processing microorganism-related data forsleep-related conditions; computational processing associated withbiological sample processing, etc.) such as by facilitating computerperformance of functions not previously performable. For example, thetechnology can apply a set of analytical techniques in a non-genericmanner to non-generic microorganism datasets and/or microbiome features(e.g., that are recently able to be generated and/or are viable due toadvances in sample processing techniques and/or sequencing technology,etc.) for improving sleep-related characterizations and/or facilitatingtherapeutic intervention for sleep-related conditions.

Third, specific examples of the technology can confer improvements inprocessing speed, sleep-related characterization, accuracy,microbiome-related therapy determination and promotion, and/or othersuitable aspects in relation to sleep-related conditions. For example,the technology can leverage non-generic microorganism datasets todetermine, select, and/or otherwise process microbiome features ofparticular relevance to one or more sleep-related conditions (e.g.,processed microbiome features relevant to a sleep-related condition;cross-condition microbiome features with relevance to a plurality ofsleep-related conditions, etc.), which can facilitate improvements inaccuracy (e.g., by using the most relevant microbiome features; byleveraging tailored analytical techniques; etc.), processing speed(e.g., by selecting a subset of relevant microbiome features; byperforming dimensionality reduction techniques; by leveraging tailoredanalytical techniques; etc.), and/or other computational improvements inrelation to phenotypic prediction (e.g., indications of thesleep-related conditions, etc.), other suitable characterizations,therapeutic intervention facilitation, and/or other suitable purposes.In a specific example, the technology can apply feature-selection rules(e.g., microbiome feature-selection rules for composition, function; forsupplemental features extracted from supplementary datasets; etc.) toselect an optimized subset of features (e.g., microbiome functionalfeatures relevant to one or more sleep-related conditions; microbiomecomposition diversity features such as reference relative abundancefeatures indicative of healthy, presence, absence, and/or other suitableranges of taxonomic groups associated with sleep-related conditions;user relative abundance features that can be compared to referencerelative abundance features correlated with sleep-related conditionsand/or therapy responses; etc.) out of a vast potential pool of features(e.g., extractable from the plethora of microbiome data such as sequencedata; identifiable by univariate statistical tests; etc.) forgenerating, applying, and/or otherwise facilitating characterizationand/or therapies (e.g., through models, etc.). The potential size ofmicrobiomes (e.g., human microbiomes, animal microbiomes, etc.) cantranslate into a plethora of data, giving rise to questions of how toprocess and analyze the vast array of data to generate actionablemicrobiome insights in relation to sleep-related conditions. However,the feature-selection rules and/or other suitable computer-implementablerules can enable one or more of: shorter generation and execution times(e.g., for generating and/or applying models; for determiningsleep-related characterizations and/or associated therapies; etc.);optimized sample processing techniques (e.g., improving transformationof microorganism nucleic acids from biological samples through usingprimer types, other biomolecules, and/or other sample processingcomponents identified through computational analysis of taxonomicgroups, sequences, and/or other suitable data associated withsleep-related conditions, such as while optimizing for improvingspecificity, reducing amplification bias, and/or other suitableparameters; etc.); model simplification facilitating efficientinterpretation of results; reduction in overfitting; network effectsassociated with generating, storing, and applying sleep-relatedcharacterizations for a plurality of users over time in relation tosleep-related conditions (e.g., through collecting and processing anincreasing amount of microbiome-related data associated with anincreasing number of users to improve predictive power of thesleep-related characterizations and/or therapy determinations; etc.);improvements in data storage and retrieval (e.g., storing and/orretrieving sleep-related characterization models; storing specificmodels such as in association with different users and/or sets of users,with different sleep-related conditions; storing microorganism datasetsin association with user accounts; storing therapy monitoring data inassociation with one or more therapies and/or users receiving thetherapies; storing features, sleep-related characterizations, and/orother suitable data in association with a user, set of users, and/orother entities to improve delivery of personalized characterizationsand/or treatments for the sleep-related conditions, etc.), and/or othersuitable improvements to technological areas.

Fourth, specific examples of the technology can amount to an inventivedistribution of functionality across a network including a samplehandling system, a sleep-related characterization system, and aplurality of users, where the sample handling system can handlesubstantially concurrent processing of biological samples (e.g., in amultiplex manner) from the plurality of users, which can be leveraged bythe sleep-related characterization system in generating personalizedcharacterizations and/or therapies (e.g., customized to the user'smicrobiome such as in relation to the user's dietary behavior,probiotics-associated behavior, medical history, demographiccharacteristics, other behaviors, preferences, etc.) for sleep-relatedconditions.

Fifth, specific examples of the technology can improve the technicalfields of at least genomics, microbiology, microbiome-relatedcomputation, diagnostics, therapeutics, microbiome-related digitalmedicine, digital medicine generally, modeling, and/or other relevantfields. In an example, the technology can model and/or characterizedifferent sleep-related conditions, such as through computationalidentification of relevant microorganism features (e.g., which can actas biomarkers to be used in diagnoses, facilitating therapeuticintervention, etc.) for sleep-related conditions. In another example,the technology can perform cross-condition analysis to identify andevaluate cross-condition microbiome features associated with (e.g.,shared across, correlated across, etc.) a plurality of a sleep-relatedconditions (e.g., diseases, phenotypes, etc.). Such identification andcharacterization of microbiome features can facilitate improved healthcare practices (e.g., at the population and individual level, such as byfacilitating diagnosis and therapeutic intervention, etc.), by reducingrisk and prevalence of comorbid and/or multi-morbid sleep-relatedconditions (e.g., which can be associated with environmental factors,and thereby associated with the microbiome, etc.).

Sixth, the technology can leverage specialized computing devices (e.g.,devices associated with the sample handling system, such asnext-generation sequencing systems; sleep-related characterizationsystems; therapy facilitation systems; etc.) in performing suitableportions associated with the method 100 and/or system 200.

Specific examples of the technology can, however, provide any othersuitable benefit(s) in the context of using non-generalized computersystems for sleep-related characterization, microbiome modulation,and/or for performing other suitable portions of the method 100.

3. System.

As shown in FIG. 2, embodiments of the system 200 (e.g., forcharacterizing a sleep-related condition) can include any one or moreof: a handling system (e.g., a sample handling system, etc.) 210operable to collect and/or process biological samples (e.g., collectedby users and included in containers including pre-processing reagents;etc.) from one or more users (e.g., a human subject, patient, animalsubject, environmental ecosystem, care provider, etc.) for facilitatingdetermination of a microorganism dataset (e.g., microorganism geneticsequences; microorganism sequence dataset; etc.); a sleep-relatedcharacterization system 220 operable to determine user microbiomefeatures (e.g., microbiome composition features; microbiome functionalfeatures; diversity features; relative abundance ranges; such as basedon a microorganism dataset and/or other suitable data; etc.), determinesleep-related characterizations (e.g., sleep-related conditioncharacterizations, therapy-related characterizations, characterizationsfor users, etc.); and/or a therapy facilitation system 230 operable tofacilitate therapeutic intervention (e.g., promote a therapy, etc.) forone or more sleep-related conditions (e.g., based on one or moresleep-related conditions; for improving one or more sleep-relatedconditions; etc.).

The handling system 210 of the system 200 can function to receive and/orprocess (e.g., fragment, amplify, sequence, generate associateddatasets, etc.) biological samples to transform microorganism nucleicacids and/or other components of the biological samples into data (e.g.,genetic sequences that can be subsequently aligned and analyzed;microorganism datasets; etc.) for facilitating generation ofsleep-related characterizations and/or therapeutic intervention. Thehandling system 210 can additionally or alternatively function toprovide sample kits 250 (e.g., including sample containers, instructionsfor collecting samples from one or more collection sites, etc.) to aplurality of users (e.g., in response to a purchase order for a samplekit 250), such as through a mail delivery system. The handling system210 can include one or more sequencing systems 215 (e.g., anext-generation sequencing systems, sequencing systems for targetedamplicon sequencing, metatranscriptomic sequencing, metagenomicsequencing, sequencing-by-synthesis techniques, capillary sequencingtechnique, Sanger sequencing, pyrosequencing techniques, nanoporesequencing techniques, etc.) for sequencing one or more biologicalsamples (e.g., sequencing microorganism nucleic acids from thebiological samples, etc.), such as in generating microorganism data(e.g., microorganism sequence data, other data for microorganismdatasets, etc.). The handling system 210 can additionally oralternatively include a library preparation system operable toautomatically prepare biological samples (e.g., fragment and amplifyusing primers compatible with genetic targets associated with thesleep-related condition) in a multiplex manner to be sequenced by asequencing system; and/or any suitable components. The handling systemcan perform any suitable sample processing techniques described herein.However, the handling system 210 and associated components can beconfigured in any suitable manner.

The sleep-related characterization system 220 of the system 200 canfunction to determine, analyze, characterize, and/or otherwise processmicroorganism datasets (e.g., based on processed biological samplesleading to microorganism genetic sequences; alignments to referencesequences; etc.), microbiome features (e.g., individual variables;groups of variables; features relevant for phenotypic prediction, forstatistical description; variables associated with a sample obtainedfrom an individual; variables associated with sleep-related conditions;variables describing fully or partially, in relative or absolutequantities the sample's microbiome composition and/or functionality;etc.), models, and/or other suitable data for facilitating sleep-relatedcharacterization and/or therapeutic intervention. In examples, thesleep-related characterization system 220 can identify data associatedwith the information of the features that statistically describe thedifferences between samples associated with one or more sleep-relatedconditions (e.g., samples associated with presence, absence, risk of,propensity for, and/or other aspects related to sleep-related conditionsetc.), such as where the differing analyses can provide complementingviews into the features differentiating the different samples (e.g.,differentiating the subgroups associated with presence or absence of acondition, etc.). In a specific example, individual predictors, aspecific biological process, and/or statistically inferred latentvariables can provide complementary information at different levels ofdata complexity to facilitate varied downstream opportunities inrelation to characterization, diagnosis, and/or treatment. In anotherspecific example, the sleep-related characterization system 220 processsupplementary data for performing one or more characterizationprocesses.

The sleep-related characterization system 220 can include, generate,apply, and/or otherwise process sleep-related characterization models,which can include any one or more of sleep-related condition models forcharacterizing one or more sleep-related conditions (e.g., determiningpropensity of one or more sleep-related conditions for one or moreusers, etc.), therapy models for determining therapies, and/or any othersuitable models for any suitable purposes associated with the system 200and/or method 100. In a specific example, the sleep-relatedcharacterization system 220 can generate and/or apply a therapy model(e.g., based on cross-condition analyses, etc.) for identifying and/orcharacterizing a therapy used to treat one or more sleep-relatedconditions. Different sleep-related characterization models (e.g.,different combinations of sleep-related characterization models;different models applying different analytical techniques; differentinputs and/or output types; applied in different manners such as inrelation to time and/or frequency; etc.) can be applied (e.g., executed,selected, retrieves, stored, etc.) based on one or more of:sleep-related conditions (e.g., using different sleep-relatedcharacterization models depending on the sleep-related condition orconditions being characterized, such as where different sleep-relatedcharacterization models possess differing levels of suitability forprocessing data in relation to different sleep-related conditions and/orcombinations of conditions, etc.), users (e.g., different sleep-relatedcharacterization models based on different user data and/orcharacteristics, demographic characteristics, genetics, environmentalfactors, etc.), sleep-related characterizations (e.g., differentsleep-related characterization models for different types ofcharacterizations, such as a therapy-related characterization versus adiagnosis-related characterization, such as for identifying relevantmicrobiome composition versus determining a propensity score for asleep-related condition; etc.), therapies (e.g., different sleep-relatedcharacterization models for monitoring efficacy of different therapies,etc.), collection sites (e.g., different sleep-related characterizationmodels for processing microorganism datasets corresponding to biologicalsamples from different collection sites; etc.), supplementary data,and/or any other suitable components. In examples, differentsleep-related characterization models can be tailored to different typesof inputs, outputs, sleep-related characterizations, sleep-relatedconditions (e.g., different phenotypic measures that need to becharacterized), and/or any other suitable entities. However,sleep-related characterization models can be tailored and/or used in anysuitable manner for facilitating sleep-related characterization and/ortherapeutic intervention.

Sleep-related characterization models, other models, other components ofthe system 200, and/or suitable portions of the method 100 (e.g.,characterization processes, determining microbiome features, determiningsleep-related characterizations, etc.) can employ analytical techniquesincluding any one or more of: univariate statistical tests, multivariatestatistical tests, dimensionality reduction techniques, artificialintelligence approaches (e.g., machine learning approaches, etc.),performing pattern recognition on data (e.g., identifying correlationsbetween sleep-related conditions and microbiome features; etc.), fusingdata from multiple sources (e.g., generating characterization modelsbased on microbiome data and/or supplementary data from a plurality ofusers associated with one or more sleep-related conditions, such asbased on microbiome features extracted from the data; etc.), combinationof values (e.g., averaging values, etc.), compression, conversion (e.g.,digital-to-analog conversion, analog-to-digital conversion), performingstatistical estimation on data (e.g. ordinary least squares regression,non-negative least squares regression, principal components analysis,ridge regression, etc.), wave modulation, normalization, updating (e.g.,of characterization models and/or therapy models based on processedbiological samples over time; etc.), ranking (e.g., microbiome features;therapies; etc.), weighting (e.g., microbiome features; etc.),validating, filtering (e.g., for baseline correction, data cropping,etc.), noise reduction, smoothing, filling (e.g., gap filling),aligning, model fitting, binning, windowing, clipping, transformations,mathematical operations (e.g., derivatives, moving averages, summing,subtracting, multiplying, dividing, etc.), data association,multiplexing, demultiplexing, interpolating, extrapolating, clustering,image processing techniques, other signal processing operations, otherimage processing operations, visualizing, and/or any other suitableprocessing operations. Artificial intelligence approaches can includeany one or more of: supervised learning (e.g., using logisticregression, using back propagation neural networks, using randomforests, decision trees, etc.), unsupervised learning (e.g., using anApriori algorithm, using K-means clustering), semi-supervised learning,a deep learning algorithm (e.g., neural networks, a restricted Boltzmannmachine, a deep belief network method, a convolutional neural networkmethod, a recurrent neural network method, stacked auto-encoder method,etc.) reinforcement learning (e.g., using a Q-learning algorithm, usingtemporal difference learning), a regression algorithm (e.g., ordinaryleast squares, logistic regression, stepwise regression, multivariateadaptive regression splines, locally estimated scatterplot smoothing,etc.), an instance-based method (e.g., k-nearest neighbor, learningvector quantization, self-organizing map, etc.), a regularization method(e.g., ridge regression, least absolute shrinkage and selectionoperator, elastic net, etc.), a decision tree learning method (e.g.,classification and regression tree, iterative dichotomiser 3, C4.5,chi-squared automatic interaction detection, decision stump, randomforest, multivariate adaptive regression splines, gradient boostingmachines, etc.), a Bayesian method (e.g., naïve Bayes, averagedone-dependence estimators, Bayesian belief network, etc.), a kernelmethod (e.g., a support vector machine, a radial basis function, alinear discriminate analysis, etc.), a clustering method (e.g., k-meansclustering, expectation maximization, etc.), an associated rule learningalgorithm (e.g., an Apriori algorithm, an Eclat algorithm, etc.), anartificial neural network model (e.g., a Perceptron method, aback-propagation method, a Hopfield network method, a self-organizingmap method, a learning vector quantization method, etc.), an ensemblemethod (e.g., boosting, boostrapped aggregation, AdaBoost, stackedgeneralization, gradient boosting machine method, random forest method,etc.), and/or any suitable artificial intelligence approach. However,data processing can be employed in any suitable manner.

The sleep-related characterization system 220 can preferably performcross-condition analyses for a plurality of sleep-related conditions(e.g., generating multi-condition characterizations based on outputs ofdifferent sleep-related characterization models, such as multi-conditionmicrobiome features; etc.). For example, the sleep-relatedcharacterization system can characterize relationships betweensleep-related conditions based on microorganism data, microbiomefeatures, and/or other suitable microbiome characteristics of usersassociated with (e.g., diagnosed with, characterized by, etc.) aplurality of sleep-related conditions. In a specific example,cross-condition analyses can be performed based on characterizations forindividual sleep-related conditions (e.g., outputs from sleep-relatedcharacterization models for individual sleep-related conditions, etc.).Cross-condition analyses can include identification ofcondition-specific features (e.g., associated exclusively with a singlesleep-related condition, etc.), multi-condition features (e.g.,associated with two or more sleep-related conditions, etc.), and/or anyother suitable types of features. Cross-condition analyses can includedetermination of parameters informing correlation, concordance, and/orother similar parameters describing relationships between two or moresleep-related conditions, such as by evaluating different pairs ofsleep-related conditions. However, the sleep-related characterizationsystem and/or other suitable components can be configured in anysuitable manner to facilitate cross-condition analyses (e.g., applyinganalytical techniques for cross-condition analysis purposes; generatingcross-condition characterizations, etc.).

The sleep-related characterization system 220 preferably includes aremote computing system (e.g., for applying sleep-relatedcharacterization models, etc.), but can additionally or alternativelyinclude any suitable computing systems (e.g., local computing systems,user devices, handling system components, etc.). However, thesleep-related characterization system 220 can be configured in anysuitable manner.

The therapy facilitation system 230 of the system 200 can function tofacilitate therapeutic intervention (e.g., promote one or moretherapies, etc.) for one or more sleep-related conditions (e.g.,facilitating modulation of a user microbiome composition and functionaldiversity for improving a state of the user in relation to one or moresleep-related conditions, etc.). The therapy facilitation system 230 canfacilitate therapeutic intervention for any number of sleep-relatedconditions associated with any number of collection sites, such as basedon multi-site characterizations, multi-condition characterizations,other characterizations, and/or any other suitable data. The therapyfacilitation system 230 can include any one or more of: a communicationssystem (e.g., to communicate therapy recommendations, selections,discouragements, and/or other suitable therapy-related information to acomputing device (e.g., user device and/or care provider device; mobiledevice; smart phone; desktop computer; at a website, web application,and/or mobile application accessed by the computing device; etc.); toenable telemedicine between a care provider and a subject in relation toa sleep-related condition; etc.), an application executable on a userdevice (e.g., indicating microbiome composition and/or functionality fora user; etc.), a medical device (e.g., a biological sampling device,such as for collecting samples from different collection sites;medication provision devices; surgical systems; etc.), a user device(e.g., biometric sensors), and/or any other suitable component. One ormore therapy facilitation systems 230 can be controllable, communicablewith, and/or otherwise associated with the sleep-relatedcharacterization system 220. For example, the sleep-relatedcharacterization system 220 can generate characterizations of one ormore sleep-related conditions for the therapy facilitation system 230 topresent (e.g., transmit, communicate, etc.) to a corresponding user(e.g., at an interface 240, etc.). In another example, the therapyfacilitation system 230 can update and/or otherwise modify anapplication and/or other software of a device (e.g., user smartphone) topromote a therapy (e.g., promoting, at a to-do list application,lifestyle changes for improving a user state associated with one or moresleep-related conditions, etc.). However, the therapy facilitationsystem 230 can be configured in any other manner.

As shown in FIG. 9, the system 200 can additionally or alternativelyinclude an interface 240, which can function to improve presentation ofmicrobiome characteristics, sleep-related condition information (e.g.,propensity metrics; therapy recommendations; comparisons to other users;other characterizations; etc.). In examples, the interface 240 canpresent sleep-related condition information including a microbiomecomposition (e.g., taxonomic groups; relative abundances; etc.),functional diversity (e.g., relative abundance of genes associated withparticular functions, and propensity metrics for one or moresleep-related conditions, such as relative to user groups sharing ademographic characteristic (e.g., smokers, exercisers, users ondifferent dietary regimens, consumers of probiotics, antibiotic users,groups undergoing particular therapies, etc.). However, the interface240 can be configured in any suitable manner.

While the components of the system 200 are generally described asdistinct components, they can be physically and/or logically integratedin any manner. For example, a computing system (e.g., a remote computingsystem, a user device, etc.) can implement portions and/or all of thesleep-related characterization system 220 (e.g., apply amicrobiome-related condition model to generate a characterization ofsleep-related conditions for a user, etc.) and the therapy facilitationsystem 230 (e.g., facilitate therapeutic intervention through presentinginsights associated with microbiome composition and/or function;presenting therapy recommendations and/or information; scheduling dailyevents at a calendar application of the smartphone to notify the user inrelation to therapies for improving sleep-related, etc.). However, thefunctionality of the system 200 can be distributed in any suitablemanner amongst any suitable system components. However, the componentsof the system 200 can be configured in any suitable manner

4.1 Determining a Microorganism Dataset.

Block S110 can include determining a microorganism dataset (e.g.,microorganism sequence dataset, microbiome composition diversity datasetsuch as based upon a microorganism sequence dataset, microbiomefunctional diversity dataset such as based upon a microorganism sequencedataset, etc.) associated with a set of subjects S110. Block S110 canfunction to process biological samples (e.g., an aggregate set ofbiological samples associated with a population of subjects, asubpopulation of subjects, a subgroup of subjects sharing a demographiccharacteristic and/or other suitable characteristics; a user biologicalsample; etc.), in order to determine compositional, functional,pharmacogenomics, and/or other suitable aspects associated with thecorresponding microbiomes, such as in relation to one or moresleep-related conditions. Compositional and/or functional aspects caninclude one or more of aspects at the microorganism level (and/or othersuitable granularity), including parameters related to distribution ofmicroorganisms across different groups of kingdoms, phyla, classes,orders, families, genera, species, subspecies, strains, and/or any othersuitable infraspecies taxon (e.g., as measured in total abundance ofeach group, relative abundance of each group, total number of groupsrepresented, etc.). Compositional and/or functional aspects can also berepresented in terms of operational taxonomic units (OTUs).Compositional and/or functional aspects can additionally oralternatively include compositional aspects at the genetic level (e.g.,regions determined by multilocus sequence typing, 16S sequences, 18Ssequences, ITS sequences, other genetic markers, other phylogeneticmarkers, etc.). Compositional and functional aspects can include thepresence or absence or the quantity of genes associated with specificfunctions (e.g. enzyme activities, transport functions, immuneactivities, etc.). Outputs of Block 110 can thus be used to facilitatedetermination of microbiome features (e.g., generation of amicroorganism sequence dataset usable for identifying microbiomefeatures; etc.) for the characterization process of Block S130 and/orother suitable portions of the method 100 (e.g., where Block S110 canlead to outputs of microbiome composition datasets, microbiomefunctional datasets, and/or other suitable microorganism datasets fromwhich microbiome features can be extracted, etc.), where the featurescan be microorganism-based (e.g., presence of a genus of bacteria),genetic-based (e.g., based upon representation of specific geneticregions and/or sequences), functional-based (e.g., presence of aspecific catalytic activity), and/or any other suitable microbiomefeatures.

In a variation, Block S110 can include assessment and/or processingbased upon phylogenetic markers (e.g., for generating microorganismdatasets, etc.) derived from bacteria and/or archaea in relation to genefamilies associated with one or more of: ribosomal protein S2, ribosomalprotein S3, ribosomal protein S5, ribosomal protein S7, ribosomalprotein S8, ribosomal protein S9, ribosomal protein S10, ribosomalprotein S11, ribosomal protein S12/S23, ribosomal protein S13, ribosomalprotein S15P/S13e, ribosomal protein S17, ribosomal protein S19,ribosomal protein L1, ribosomal protein L2, ribosomal protein L3,ribosomal protein L4/L1e, ribosomal protein L5, ribosomal protein L6,ribosomal protein L10, ribosomal protein L11, ribosomal proteinL14b/L23e, ribosomal protein L15, ribosomal protein L16/L10E, ribosomalprotein L18P/L5E, ribosomal protein L22, ribosomal protein L24,ribosomal protein L25/L23, ribosomal protein L29, translation elongationfactor EF-2, translation initiation factor IF-2, metalloendopeptidase,ffh signal recognition particle protein, phenylalanyl-tRNA synthetasebeta subunit, phenylalanyl-tRNA synthetase alpha subunit, tRNApseudouridine synthase B, Porphobilinogen deaminase, ribosomal proteinL13, phosphoribosylformylglycinamidine cyclo-ligase, and ribonucleaseHII. Additionally or alternatively, markers can include target sequences(e.g., sequences associated with a microorganism taxonomic group;sequences associated with functional aspects; sequences correlated withsleep-related conditions; sequences indicative of user responsiveness todifferent therapies; sequences that are invariant across a populationand/or any suitable set of subjects, such as to facilitate multiplexamplification using a primer type sharing a primer sequence; conservedsequences; sequences including mutations, polymorphisms; nucleotidesequences; amino acid sequences; etc.), proteins (e.g., serum proteins,antibodies, etc.), peptides, carbohydrates, lipids, other nucleic acids,whole cells, metabolites, natural products, genetic predispositionbiomarkers, diagnostic biomarkers, prognostic biomarkers, predictivebiomarkers, other molecular biomarkers, gene expression markers, imagingbiomarkers, and/or other suitable markers. However, markers can includeany other suitable marker(s) associated with microbiome composition,microbiome functionality, and/or sleep-related conditions.

Characterizing the microbiome composition and/or functional aspects foreach of the aggregate set of biological samples thus preferably includesa combination of sample processing techniques (e.g., wet laboratorytechniques; as shown in FIG. 5), including, but not limited to, ampliconsequencing (e.g., 16S, 18S, ITS), UMIs, 3 step PCR, Crispr, metagenomicapproaches, metatranscriptomics, use of random primers, andcomputational techniques (e.g., utilizing tools of bioinformatics), toquantitatively and/or qualitatively characterize the microbiome andfunctional aspects associated with each biological sample from a subjector population of subjects.

In variations, sample processing in Block 110 can include any one ormore of: lysing a biological sample, disrupting membranes in cells of abiological sample, separation of undesired elements (e.g., RNA,proteins) from the biological sample, purification of nucleic acids(e.g., DNA) in a biological sample, amplification of nucleic acids fromthe biological sample, further purification of amplified nucleic acidsof the biological sample, and sequencing of amplified nucleic acids ofthe biological sample. In an example, Block 110 can include: collectingbiological samples from a set of users (e.g., biological samplescollected by the user with a sampling kit including a sample container,etc.), where the biological samples include microorganism nucleic acidsassociated with the sleep-related condition (e.g., microorganism nucleicacids including target sequences correlated with a sleep-relatedcondition; etc.). In another example, Block S110 can include providing aset of sampling kits to a set of users, each sampling kit of the set ofsampling kits including a sample container (e.g., includingpre-processing reagents, such as lysing reagents; etc.) operable toreceive a biological sample from a user of the set of users.

In variations, lysing a biological sample and/or disrupting membranes incells of a biological sample preferably includes physical methods (e.g.,bead beating, nitrogen decompression, homogenization, sonication), whichomit certain reagents that produce bias in representation of certainbacterial groups upon sequencing. Additionally or alternatively, lysingor disrupting in Block 110 can involve chemical methods (e.g., using adetergent, using a solvent, using a surfactant, etc.). Additionally oralternatively, lysing or disrupting in Block 110 can involve biologicalmethods. In variations, separation of undesired elements can includeremoval of RNA using RNases and/or removal of proteins using proteases.In variations, purification of nucleic acids can include one or more of:precipitation of nucleic acids from the biological samples (e.g., usingalcohol-based precipitation methods), liquid-liquid based purificationtechniques (e.g., phenol-chloroform extraction), chromatography-basedpurification techniques (e.g., column adsorption), purificationtechniques involving use of binding moiety-bound particles (e.g.,magnetic beads, buoyant beads, beads with size distributions,ultrasonically responsive beads, etc.) configured to bind nucleic acidsand configured to release nucleic acids in the presence of an elutionenvironment (e.g., having an elution solution, providing a pH shift,providing a temperature shift, etc.), and any other suitablepurification techniques.

In variations, amplification of purified nucleic acids can include oneor more of: polymerase chain reaction (PCR)-based techniques (e.g.,solid-phase PCR, RT-PCR, qPCR, multiplex PCR, touchdown PCR, nanoPCR,nested PCR, hot start PCR, etc.), helicase-dependent amplification(HDA), loop mediated isothermal amplification (LAMP), self-sustainedsequence replication (3SR), nucleic acid sequence based amplification(NASBA), strand displacement amplification (SDA), rolling circleamplification (RCA), ligase chain reaction (LCR), and any other suitableamplification technique. In amplification of purified nucleic acids, theprimers used are preferably selected to prevent or minimizeamplification bias, as well as configured to amplify nucleic acidregions/sequences (e.g., of the 16S region, the 18S region, the ITSregion, etc.) that are informative taxonomically, phylogenetically, fordiagnostics, for formulations (e.g., for probiotic formulations), and/orfor any other suitable purpose. Thus, universal primers (e.g., aF27-R338 primer set for 16S RNA, a F515-R806 primer set for 16S RNA,etc.) configured to avoid amplification bias can be used inamplification. Additionally or alternatively include incorporatedbarcode sequences and/or UMIs specific to biological samples, to users,to sleep-related conditions, to taxa, to target sequences, and/or to anyother suitable components, which can facilitate a post-sequencingidentification process (e.g., for mapping sequence reads to microbiomecomposition and/or microbiome function aspects; etc.). Primers used invariations of Block 110 can additionally or alternatively includeadaptor regions configured to cooperate with sequencing techniquesinvolving complementary adaptors (e.g., Illumina Sequencing).Additionally or alternatively, Block S110 can implement any other stepconfigured to facilitate processing (e.g., using a Nextera kit). In aspecific example, performing amplification and/or sample processingoperations can be in a multiplex manner (e.g., for a single biologicalsample, for a plurality of biological samples across multiple users;etc.). In another specific example, performing amplification can includenormalization steps to balance libraries and detect all amplicons in amixture independent of the amount of starting material, such as 3 stepPCR, bead based normalization, and/or other suitable techniques.

In variations, sequencing of purified nucleic acids can include methodsinvolving targeted amplicon sequencing, metatranscriptomic sequencing,and/or metagenomic sequencing, implementing techniques including one ormore of: sequencing-by-synthesis techniques (e.g., Illumina sequencing),capillary sequencing techniques (e.g., Sanger sequencing),pyrosequencing techniques, and nanopore sequencing techniques (e.g.,using an Oxford Nanopore technique).

In a specific example, amplification and sequencing of nucleic acidsfrom biological samples of the set of biological samples includes:solid-phase PCR involving bridge amplification of DNA fragments of thebiological samples on a substrate with oligo adapters, whereamplification involves primers having a forward index sequence (e.g.,corresponding to an Illumina forward index for MiSeq/NextSeq/HiSeqplatforms), a forward barcode sequence, a transposase sequence (e.g.,corresponding to a transposase binding site for MiSeq/NextSeq/HiSeqplatforms), a linker (e.g., a zero, one, or two-base fragment configuredto reduce homogeneity and improve sequence results), an additionalrandom base, UMIs, a sequence for targeting a specific target region(e.g., 16S region, 18S region, ITS region), a reverse index sequence(e.g., corresponding to an Illumina reverse index for MiSeq/HiSeqplatforms), and a reverse barcode sequence. In the specific example,sequencing can include Illumina sequencing (e.g., with a HiSeq platform,with a MiSeq platform, with a NextSeq platform, etc.) using asequencing-by-synthesis technique. In another specific example, themethod 100 can include: identifying one or more primer types compatiblewith one or more genetic targets associated with one or moresleep-related conditions (e.g., a biomarker of the one or moresleep-related conditions; positively correlated with; negativelycorrelated with; causative of; etc.); determining a microorganismdataset (e.g., microorganism sequence dataset; such as with anext-generation sequencing system; etc.) for one or more users (e.g.,set of subjects) based on the one or more primer types (e.g., based onprimers corresponding to the one or more primer types, and on themicroorganism nucleic acids included in collected biological samples,etc.), such as through fragmenting the microorganism nucleic acids,and/or performing a singleplex amplification process and/or a multiplexamplification process for the fragmented microorganism nucleic acidsbased on the one or more identified primer types (e.g., primerscorresponding to the primer types, etc.) compatible with the one or moregenetic targets associated with the sleep-related condition; and/orpromoting (e.g., providing), based on a sleep-related characterizationderived from the a microorganism dataset a therapy for the usercondition (e.g., enabling selective modulation of a microbiome of theuser in relation to at least one of a population size of a desired taxonand a desired microbiome function, etc.). In a specific example, thebiological samples can correspond to a set of collection sites includingat least one of a gut site, a skin site, a nose site, a mouth site, anda genitals site, and where determining a microorganism dataset (e.g.,microorganism sequence dataset, etc.) can include identifying a firstprimer type compatible with a first genetic target associated with oneor more sleep-related conditions and a first collection site of the setof collection sites; identifying a second primer type compatible with asecond genetic target associated with the one or more sleep-relatedconditions and a second collection site of the set of collection sites;and generating the microorganism dataset for the set of subjects basedon the microorganism nucleic acids, the first primers corresponding tothe first primer type, and second primers corresponding to the secondprimer type. In the specific example, the first collection site type caninclude the gut site (e.g., which can be evaluated through stoolsamples, etc.), where determining the microorganism dataset can includedetermining at least one of a metagenomic library and ametatranscriptomic library based on a subset of the microorganismnucleic acids and the first primers, and where determining the at leastone of the set of microbiome composition features and the set ofmicrobiome functional features can include determining the at least oneof the set of microbiome composition features and the set of microbiomefunctional features based on the at least one of the metagenomic libraryand the metatranscriptomic library. However, processing metagenomiclibraries and/or metatranscriptomic libraries (e.g., for any suitableportions of the method 100 and/or system 200) can be performed in anysuitable manner.

In variations, primers (e.g., of a primer type corresponding to a primersequence; etc.) used in Block S110 and/or other suitable portions of themethod 100 can include primers associated with protein genes (e.g.,coding for conserved protein gene sequences across a plurality of taxa,such as to enable multiplex amplification for a plurality of targetsand/or taxa; etc.). Primers can additionally or alternatively beassociated with sleep-related conditions (e.g., primers compatible withgenetic targets including microorganism sequence biomarkers formicroorganisms correlated with sleep-related conditions; etc.),microbiome composition features (e.g., identified primers compatiblewith a genetic target corresponding to microbiome composition featuresassociated with a group of taxa correlated with a sleep-relatedcondition; genetic sequences from which relative abundance features arederived etc.), functional diversity features, supplementary features,and/or other suitable features and/or data. Primers (and/or othersuitable molecules, markers, and/or biological material describedherein) can possess any suitable size (e.g., sequence length, number ofbase pairs, conserved sequence length, variable region length, etc.).Additionally or alternatively, any suitable number of primers can beused in sample processing for performing characterizations (e.g.,sleep-related characterizations; etc.), improving sample processing(e.g., through reducing amplification bias, etc.), and/or for anysuitable purposes. The primers can be associated with any suitablenumber of targets, sequences, taxa, conditions, and/or other suitableaspects. Primers used in Block 110 and/or other suitable portions of themethod 100 can be selected through processes described in Block 110(e.g., primer selection based on parameters used in generating thetaxonomic database) and/or any other suitable portions of the method100. Additionally or alternatively, primers (and/or processes associatedwith primers) can include and/or be analogous to that described in U.S.application Ser. No. 14/919,614, filed 21 Oct. 2015, which is hereinincorporated in its entirety by this reference. However, identificationand/or usage of primers can be configured in any suitable manner.

Some variations of sample processing can include further purification ofamplified nucleic acids (e.g., PCR products) prior to sequencing, whichfunctions to remove excess amplification elements (e.g., primers, dNTPs,enzymes, salts, etc.). In examples, additional purification can befacilitated using any one or more of: purification kits, buffers,alcohols, pH indicators, chaotropic salts, nucleic acid binding filters,centrifugation, and/or any other suitable purification technique.

In variations, computational processing in Block 110 can include any oneor more of: identification of microbiome-derived sequences (e.g., asopposed to subject sequences and contaminants), alignment and mapping ofmicrobiome-derived sequences (e.g., alignment of fragmented sequencesusing one or more of single-ended alignment, ungapped alignment, gappedalignment, pairing), and generating features associated with (e.g.,derived from) compositional and/or functional aspects of the microbiomeassociated with a biological sample.

Identification of microbiome-derived sequences can include mapping ofsequence data from sample processing to a subject reference genome(e.g., provided by the Genome Reference Consortium), in order to removesubject genome-derived sequences. Unidentified sequences remaining aftermapping of sequence data to the subject reference genome can then befurther clustered into operational taxonomic units (OTUs) based uponsequence similarity and/or reference-based approaches (e.g., usingVAMPS, using MG-RAST, using QIIME databases), aligned (e.g., using agenome hashing approach, using a Needleman-Wunsch algorithm, using aSmith-Waterman algorithm), and mapped to reference bacterial genomes(e.g., provided by the National Center for Biotechnology Information),using an alignment algorithm (e.g., Basic Local Alignment Search Tool,FPGA accelerated alignment tool, BWT-indexing with BWA, BWT-indexingwith SOAP, BWT-indexing with Bowtie, etc.). Mapping of unidentifiedsequences can additionally or alternatively include mapping to referencearchaeal genomes, viral genomes and/or eukaryotic genomes. Furthermore,mapping of taxa can be performed in relation to existing databases,and/or in relation to custom-generated databases.

However, processing biological samples, generating a microorganismdataset, and/or other aspects associated with Block 110 can be performedin any suitable manner.

4.2 Processing Supplementary Data.

The method 100 can additionally or alternatively include Block S120,which can include processing (e.g., receiving, collecting, transforming,determining supplementary features, ranking supplementary features,identifying correlations, etc.) supplementary data (e.g., one or moresupplementary datasets, etc.) associated with (e.g., informative of;describing; indicative of; correlated with; etc.) one or moresleep-related conditions, one or more users, and/or other suitableentities. Block S120 can function to process data for supplementingmicroorganism datasets, microbiome features (e.g., in relation todetermining sleep-related characterizations and/or facilitatingtherapeutic intervention, etc.), and/or can function to supplement anysuitable portion of the method 100 and/or system 200 (e.g., processingsupplementary data for facilitating one or more characterizationprocesses, such as in Block S130; such as for facilitating training,validating, generating, determining, applying and/or otherwiseprocessing sleep-related characterization models, etc.). In an example,supplementary data can include at least one of survey-derived data, userdata, site-specific data, and device data (and/or other suitablesupplementary data), where the method 100 can include determining a setof supplementary features based on the at least one of thesurvey-derived data, the user data, the site-specific data, and thedevice data (and/or other suitable supplementary data); and generatingone or more sleep-related characterization models based on thesupplementary features, microbiome features, and/or other suitable data.

Supplementary data can include any one or more of: survey-derived data(e.g., data from responses to one or more surveys surveying for one ormore sleep-related conditions, for any suitable types of data describedherein; etc.); site-specific data (e.g., data informative of differentcollection sites, such as prior biological knowledge indicatingcorrelations between microbiomes at specific collection sites and one ormore sleep-related conditions; etc.); sleep-related condition data(e.g., data informative of different sleep-related conditions, such asin relation to microbiome characteristics, therapies, users, etc.);device data (e.g., sensor data; contextual sensor data associated withsleep; wearable device data; medical device data; user device data suchas mobile phone application data; web application data; etc.); user data(e.g., user medical data current and historical medical data such ashistorical therapies, historical medical examination data; medicaldevice-derived data; physiological data; data associated with medicaltests; social media data; demographic data; family history data;behavior data describing behaviors; environmental factor data describingenvironmental factors; diet-related data such as data from foodestablishment check-ins, data from spectrophotometric analysis,user-inputted data, nutrition data associated with probiotic and/orprebiotic food items, types of food consumed, amount of food consumed,caloric data, diet regimen data, and/or other suitable diet-relateddata; etc.); prior biological knowledge (e.g., informative ofsleep-related conditions, microbiome characteristics, associationsbetween microbiome characteristics and sleep-related conditions, etc.);and/or any other suitable type of supplementary data.

In variations, processing supplementary data can include processingsurvey-derived data, where the survey-derived data can providephysiological data, demographic data, behavior data, environmentalfactor data (e.g., describing environmental factors, etc.), other typesof supplementary data, and/or any other suitable data. Physiologicaldata can include information related to physiological features (e.g.,height, weight, body mass index, body fat percent, body hair level,medical history, etc.). Demographic data can include information relatedto demographic characteristics (e.g., gender, age, ethnicity, maritalstatus, number of siblings, socioeconomic status, sexual orientation,etc.). Behavioral data can describe behaviors including one or more:health-associated states (e.g., health and disease states), dietaryhabits (e.g., alcohol consumption, caffeine consumption, omnivorous,vegetarian, vegan, sugar consumption, acid consumption, consumption ofwheat, egg, soy, treenut, peanut, shellfish, food preferences, allergycharacteristics, consumption and/or avoidance of other food items,etc.), behavioral tendencies (e.g., levels of physical activity, druguse, alcohol use, habit development, etc.), different levels of mobility(e.g., amount of exercise such as low, moderate, and/or extreme physicalexercise activity; related to distance traveled within a given timeperiod; indicated by mobility sensors such as motion and/or locationsensors; etc.), different levels of sexual activity (e.g., related tonumbers of partners and sexual orientation), and any other suitablebehavioral data. Survey-derived data can include quantitative data,qualitative data, and/or other suitable types of survey-derived data,such as where qualitative data can be converted to quantitative data(e.g., using scales of severity, mapping of qualitative responses toquantified scores, etc.). Processing survey-derived data can includefacilitating collection of survey-derived data, such as includingproviding one or more surveys to one or more users, subjects, and/orother suitable entities. Surveys can be provided in-person (e.g., incoordination with sample kit provision and/or reception of samples;etc.), electronically (e.g., during account setup; at an applicationexecuting at an electronic device of a subject, at a web applicationand/or website accessible through an internet connection; etc.), and/orin any other suitable manner.

Additionally or alternatively, processing supplementary data can includeprocessing sensor data (e.g., sensors of sleep-related devices, wearablecomputing devices, mobile devices; biometric sensors associated with theuser, such as biometric sensors of a user smart phone; etc.). Sensordata can include any one or more of: physical activity- and/or physicalaction-related data (e.g., accelerometer data, gyroscope data, locationsensor data such as GPS data, and/or other mobility sensor data from oneor more devices such as a mobile device and/or wearable electronicdevice, etc.), sensor data describing environmental factors (e.g.,temperature data, elevation data, climate data, light parameter data,pressure data, air quality data, etc.), biometric sensor data (e.g.,heart rate sensor data; fingerprint sensor data; optical sensor datasuch as facial images and/or video; data recorded through sensors of amobile device; data recorded through a wearable or other peripheraldevice; etc.), and/or any other suitable data associated with sensors.Additionally or alternatively, sensor data can include data sampled atone or more: optical sensors (e.g., image sensors, light sensors,cameras, etc.), audio sensors (e.g., microphones, etc.), temperaturesensors, volatile compound sensors, air quality sensors, weight sensors,humidity sensors, depth sensors, location sensors (GPS receivers;beacons; indoor positioning systems; compasses; etc.), motion sensors(e.g., accelerators, gyroscope, magnetometer, remote motion detectionsystems such as for monitoring motion of a user when sleeping, motionsensors integrated with a device worn by a user during sleep, etc.),biometric sensors (e.g., heart rate sensors such as for monitoring heartrate during a time period associated with user sleep; fingerprintsensors; facial recognition sensors; bio-impedance sensors, etc.),pressure sensors (e.g., integrated with a bedding-related component,such as for detecting user motion when sleeping on a bed, etc.),proximity sensors (e.g., for monitoring motion and/or other aspects ofthird-party objects associated with user sleep periods; etc.), flowsensors, power sensors (e.g., Hall effect sensors), virtualreality-related sensors, augmented reality-related sensors, and/or orany other suitable types of sensors.

Additionally or alternatively, supplementary data can include medicalrecord data and/or clinical data. As such, portions of the supplementarydataset can be derived from one or more electronic health records(EHRs). Additionally or alternatively, supplementary data can includeany other suitable diagnostic information (e.g., clinical diagnosisinformation). Any suitable supplementary data (e.g., in the form ofextracted supplementary features, etc.) can be combined with and/or usedwith microbiome features and/or other suitable data for performingportions of the method 100 (e.g., performing characterization processes,etc.) and/or system 200. For example, supplementary data associated with(e.g., derived from, etc.) a colonoscopy, biopsy, blood test, diagnosticimaging, other suitable diagnostic procedures, survey-relatedinformation, and/or any other suitable test can be used to supplement(e.g., for any suitable portions of the method 100 and/or system 200).

Additionally or alternatively, supplementary data can includetherapy-related data including one or more of: therapy regimens, typesof therapies, recommended therapies, therapies used by the user, therapyadherence, and/or other suitable data related to therapies. For example,supplementary data can include user adherence metrics (e.g., medicationadherence, probiotic adherence, physical exercise adherence, dietaryadherence, etc.) in relation one or more therapies (e.g., a recommendedtherapy, etc.). However, processing supplementary data can be performedin any suitable manner.

4.2 Performing a Characterization Process.

Block S130 can include, performing a characterization process (e.g.,pre-processing, feature generation, feature processing, multi-sitecharacterization for a plurality of collection sites, cross-conditionanalysis for a plurality of sleep-related conditions, model generation,etc.) associated with one or more sleep-related conditions, such asbased on a microorganism dataset (e.g., derived in Block 110, etc.)and/or other suitable data (e.g., supplementary dataset; etc.) S130.Block S130 can function to identify, determine, extract, and/orotherwise process features and/or feature combinations that can be usedto determine sleep-related characterizations for users or and sets ofusers, based upon their microbiome composition (e.g., microbiomecomposition diversity features, etc.), function (e.g., microbiomefunctional diversity features, etc.), and/or other suitable microbiomefeatures (e.g., such as through the generation and application of acharacterization model for determining sleep-related characterizations,etc.). As such, the characterization process can be used as a diagnostictool that can characterize a subject (e.g., in terms of behavioraltraits, in terms of medical conditions, in terms of demographiccharacteristics, etc.) based upon their microbiome composition and/orfunctional features, in relation to one or more of their healthcondition states (e.g., sleep-related condition states), behavioraltraits, medical conditions, demographic characteristics, and/or anyother suitable traits. Such characterizations can be used to determine,recommend, and/or provide therapies (e.g., personalized therapies, suchas determined by way of a therapy model, etc.), and/or otherwisefacilitate therapeutic intervention.

Performing a characterization process S130 can include pre-processingmicroorganism datasets, microbiome features, and/or other suitable datafor facilitation of downstream processing (e.g., determiningsleep-related characterizations, etc.). In an example, performing acharacterization process can include, filtering a microorganism dataset(e.g., filtering a microorganism sequence dataset, such as prior toapplying a set of analytical techniques to determine the microbiomefeatures, etc.), by at least one of: a) removing first sample datacorresponding to first sample outliers of a set of biological samples(e.g., associated with one or more sleep-related conditions, etc.), suchas where the first sample outliers are determined by at least one ofprincipal component analysis, a dimensionality reduction technique, anda multivariate methodology; b) removing second sample data correspondingto second sample outliers of the set of biological samples, where thesecond sample outliers can determined based on corresponding dataquality for the set of microbiome features (e.g., removing samplescorresponding to a number of microbiome features with high quality databelow a threshold condition, etc.); and c) removing one or moremicrobiome features from the set of microbiome features based on asample number for the microbiome feature failing to satisfy a thresholdsample number condition, where the sample number corresponds to a numberof samples associated with high quality data for the microbiome feature.However, pre-processing can be performed with any suitable analyticaltechniques in any suitable manner.

In performing the characterization process, Block S130 can usecomputational methods (e.g., statistical methods, machine learningmethods, artificial intelligence methods, bioinformatics methods, etc.)to characterize a subject as exhibiting features (e.g., wheredetermining user microbiome features can include determining featurevalues for microbiome features identified by characterization processesas correlated with and/or otherwise associated with one or moresleep-related conditions, etc.) associated with one or moresleep-related conditions (e.g., features characteristic of a set ofusers with the one or more sleep-related conditions, etc.).

As shown in FIG. 3, performing characterization processes can includedetermining one or more microbiome features associated with one or moresleep-related conditions (e.g., identifying microbiome features withgreatest relevance to one or more sleep-related conditions; determininguser microbiome features, such as presence, absence, and/or values ofuser microbiome features corresponding to the identified microbiomefeatures associated with the one or more sleep-related conditions,etc.), such as through applying one or more analytical techniques. In anexample, determining microbiome features (e.g., microbiome compositionfeatures, microbiome functional features, etc.) can applying a set ofanalytical techniques including at least one of a univariate statisticaltest, a multivariate statistical test, a dimensionality reductiontechnique, and an artificial intelligence approach, such as based on amicroorganism dataset (e.g., microorganism sequence dataset, etc.), andwhere the microbiome features configured to improve computingsystem-related functionality associated with the determining of thesleep-related characterization for the user (e.g., in relation toaccuracy, reducing error, processing speed, scaling, etc.). In anexample, determining microbiome features (e.g., user microbiomefeatures, etc.) can include applying a set of analytical techniques todetermine at least one of presence of at least one of a microbiomecomposition diversity feature and a microbiome functional diversityfeature, absence of the at least one of the microbiome compositiondiversity feature and the microbiome functional diversity feature, arelative abundance feature describing relative abundance of differenttaxonomic groups associated with the first sleep-related condition, aratio feature describing a ratio between at least two microbiomefeatures associated with the different taxonomic groups, an interactionfeature describing an interaction between the different taxonomicgroups, and a phylogenetic distance feature describing phylogeneticdistance between the different taxonomic groups, such as based on themicroorganism dataset, and where the set of analytical techniques caninclude at least one of a univariate statistical test, a multivariatestatistical test, a dimensionality reduction technique, and anartificial intelligence approach.

In variations, upon identification of represented groups ofmicroorganisms of the microbiome associated with a biological sample,generating features associated with (e.g., derived from) compositionaland functional aspects of the microbiome associated with a biologicalsample can be performed. In a variation, generating features can includegenerating features based upon multilocus sequence typing (MSLT), inorder to identify markers useful for characterization in subsequentblocks of the method 100. Additionally or alternatively, generatedfeatures can include generating features that describe the presence orabsence of certain taxonomic groups of microorganisms, and/or ratiosbetween exhibited taxonomic groups of microorganisms. Additionally oralternatively, generating features can include generating featuresdescribing one or more of: quantities of represented taxonomic groups,networks of represented taxonomic groups, correlations in representationof different taxonomic groups, interactions between different taxonomicgroups, products produced by different taxonomic groups, interactionsbetween products produced by different taxonomic groups, ratios betweendead and alive microorganisms (e.g., for different represented taxonomicgroups, based upon analysis of RNAs), phylogenetic distance (e.g., interms of Kantorovich-Rubinstein distances, Wasserstein distances etc.),any other suitable taxonomic group-related feature(s), any othersuitable genetic or functional aspect(s).

Additionally or alternatively, generating features can includegenerating features describing relative abundance of differentmicroorganism groups, for instance, using a sparCC approach, usingGenome Relative Abundance and Average size (GAAS) approach and/or usinga Genome Relative Abundance using Mixture Model theory (GRAMMy) approachthat uses sequence-similarity data to perform a maximum likelihoodestimation of the relative abundance of one or more groups ofmicroorganisms. Additionally or alternatively, generating features caninclude generating statistical measures of taxonomic variation, asderived from abundance metrics. Additionally or alternatively,generating features can include generating features associated with(e.g., derived from) relative abundance factors (e.g., in relation tochanges in abundance of a taxon, which affects abundance of other taxa).Additionally or alternatively, generating features can includegeneration of qualitative features describing presence of one or moretaxonomic groups, in isolation and/or in combination. Additionally oralternatively, generating features can include generation of featuresrelated to genetic markers (e.g., representative 16S, 18S, and/or ITSsequences) characterizing microorganisms of the microbiome associatedwith a biological sample. Additionally or alternatively, generatingfeatures can include generation of features related to functionalassociations of specific genes and/or organisms having the specificgenes. Additionally or alternatively, generating features can includegeneration of features related to pathogenicity of a taxon and/orproducts attributed to a taxon. Block S130 can, however, includedetermination of any other suitable feature(s) derived from sequencingand mapping of nucleic acids of a biological sample. For instance, thefeature(s) can be combinatory (e.g. involving pairs, triplets),correlative (e.g., related to correlations between different features),and/or related to changes in features (e.g., temporal changes, changesacross sample sites, etc., spatial changes, etc.). However, determiningmicrobiome features can be performed in any suitable manner.

In variations, performing a characterization process can includeperforming one or more multi-site analyses (e.g., with sleep-relatedcharacterization models; generating a multi-site characterization, etc.)associated with a plurality of collection sites. However, multi-siteanalyses can be performed in any suitable manner.

In variations, performing a characterization process can includeperforming one or more cross-condition analyses (e.g., usingsleep-related characterization models, etc.) for a plurality ofsleep-related conditions. In an example, performing cross-conditionanalyses can include determining a set of cross-condition features(e.g., as part of determining microbiome features, etc.) associated witha plurality of sleep-related conditions (e.g., a first sleep-relatedcondition and a second sleep-related condition, etc.) based on one ormore analytical techniques, where determining a sleep-relatedcharacterization can include determining the sleep-relatedcharacterization for a user for the plurality of sleep-relatedconditions (e.g., first and the second sleep-related conditions, etc.)based on one or more sleep-related characterization models, and wherethe set of cross-condition features is configured to improve thecomputing system-related functionality associated with the determiningof the sleep-related characterization for the user for the plurality ofsleep-related conditions. Performing cross-condition analyses caninclude determining cross-condition correlation metrics (e.g.,correlation and/or covariance between data corresponding to differentsleep-related conditions, etc.) and/or other suitable metrics associatedwith cross-condition analyses. However, performing cross-conditionanalyses can be performed in any suitable manner.

In a variation, characterization can be based upon features associatedwith (e.g., derived from) a statistical analysis (e.g., an analysis ofprobability distributions) of similarities and/or differences between afirst group of subjects exhibiting a target state (e.g., a sleep-relatedcondition state) and a second group of subjects not exhibiting thetarget state (e.g., a “normal” state). In implementing this variation,one or more of a Kolmogorov-Smirnov (KS) test, a permutation test, aCramer-von Mises test, any other statistical test (e.g., t-test, z-test,chi-squared test, test associated with distributions, etc.), and/orother suitable analytical techniques can be used. In particular, one ormore such statistical hypothesis tests can be used to assess a set offeatures having varying degrees of abundance in a first group ofsubjects exhibiting a target state (e.g., a sick state) and a secondgroup of subjects not exhibiting the target state (e.g., having a normalstate). In more detail, the set of features assessed can be constrainedbased upon percent abundance and/or any other suitable parameterpertaining to diversity in association with the first group of subjectsand the second group of subjects, in order to increase or decreaseconfidence in the characterization. In a specific implementation of thisexample, a feature can be derived from a taxon of bacteria that isabundant in a certain percentage of subjects of the first group andsubjects of the second group, where a relative abundance of the taxonbetween the first group of subjects and the second group of subjects canbe determined from the KS test, with an indication of significance(e.g., in terms of p-value). Thus, an output of Block S130 can include anormalized relative abundance value (e.g., 25% greater abundance of ataxon in subjects with a sleep-related condition vs. subjects withoutthe sleep-related condition; in sick subjects vs. healthy subjects) withan indication of significance (e.g., a p-value of 0.0013). Variations offeature generation can additionally or alternatively implement or bederived from functional features or metadata features (e.g.,non-bacterial markers). Additionally or alternatively, any suitablemicrobiome features can be derived based on statistical analyses (e.g.,applied to a microorganism sequence dataset and/or other suitablemicroorganism dataset, etc.) including any one or more of: a predictionanalysis, multi hypothesis testing, a random forest test, principalcomponent analysis, and/or other suitable analytical techniques.

In performing the characterization process, Block S130 can additionallyor alternatively transform input data from at least one of themicrobiome composition diversity dataset and microbiome functionaldiversity dataset into feature vectors that can be tested for efficacyin predicting characterizations of the population of subjects. Data fromthe supplementary dataset can be used to provide indication of one ormore characterizations of a set of characterizations, where thecharacterization process is trained with a training dataset of candidatefeatures and candidate classifications to identify features and/orfeature combinations that have high degrees (or low degrees) ofpredictive power in accurately predicting a classification. As such,refinement of the characterization process with the training datasetidentifies feature sets (e.g., of subject features, of combinations offeatures) having high correlation with specific classifications ofsubjects.

In variations, feature vectors (and/or any suitable set of features)effective in predicting classifications of the characterization processcan include features related to one or more of: microbiome diversitymetrics (e.g., in relation to distribution across taxonomic groups, inrelation to distribution across archaeal, bacterial, viral, and/oreukaryotic groups), presence of taxonomic groups in one's microbiome,representation of specific genetic sequences (e.g., 16S sequences) inone's microbiome, relative abundance of taxonomic groups in one'smicrobiome, microbiome resilience metrics (e.g., in response to aperturbation determined from the supplementary dataset), abundance ofgenes that encode proteins or RNAs with given functions (enzymes,transporters, proteins from the immune system, hormones, interferenceRNAs, etc.) and any other suitable features associated with (e.g.,derived from) the microbiome diversity dataset and/or the supplementarydataset. In variations, microbiome features can be associated with(e.g., include, correspond to, typify, etc.) at least one of: presenceof a microbiome feature from the microbiome features (e.g., usermicrobiome features, etc.), absence of the microbiome features from themicrobiome features, relative abundance of different taxonomic groupsassociated with the sleep-related condition; a ratio between at leasttwo microbiome features associated with the different taxonomic groups,interactions between the different taxonomic groups, and phylogeneticdistance between the different taxonomic groups. In a specific example,microbiome features can include one or more relative abundancecharacteristics associated with at least one of the microbiomecomposition diversity features (e.g., relative abundance associated withdifferent taxa, etc.) and the microbiome functional diversity features(e.g., relative abundance of sequences corresponding to differentfunctional features; etc.). Relative abundance characteristics and/orother suitable microbiome features (and/or other suitable data describedherein) can be extracted and/or otherwise determined based on: anormalization, a feature vector derived from at least one of linearlatent variable analysis and non-linear latent variable analysis, linearregression, non-linear regression, a kernel method, a feature embeddingmethod, a machine learning method, a statistical inference method,and/or other suitable analytical techniques. Additionally oralternatively, combinations of features can be used in a feature vector,where features can be grouped and/or weighted in providing a combinedfeature as part of a feature set. For example, one feature or featureset can include a weighted composite of the number of representedclasses of bacteria in one's microbiome, presence of a specific genus ofbacteria in one's microbiome, representation of a specific 16S sequencein one's microbiome, and relative abundance of a first phylum over asecond phylum of bacteria. However, the feature vectors can additionallyor alternatively be determined in any other suitable manner.

In a variation, the characterization process can be generated andtrained according to a random forest predictor (RFP) algorithm thatcombines bagging (e.g., bootstrap aggregation) and selection of randomsets of features from a training dataset to construct a set of decisiontrees, T, associated with the random sets of features. In using a randomforest algorithm, N cases from the set of decision trees are sampled atrandom with replacement to create a subset of decision trees, and foreach node, m prediction features are selected from all of the predictionfeatures for assessment. The prediction feature that provides the bestsplit at the node (e.g., according to an objective function) is used toperform the split (e.g., as a bifurcation at the node, as a trifurcationat the node). By sampling many times from a large dataset, the strengthof the characterization process, in identifying features that are strongin predicting classifications can be increased substantially. In thisvariation, measures to prevent bias (e.g., sampling bias) and/or accountfor an amount of bias can be included during processing, such as toincrease robustness of the model.

In a variation, Block S130 and/or other portions of the method 100 caninclude applying computer-implemented rules (e.g., models, featureselection rules, etc.) to process population-level data, but canadditionally or alternatively include applying computer-implementedrules to process microbiome-related data on a demographiccharacteristic-specific basis (e.g., subgroups sharing one or moredemographic characteristics such as therapy regimens, dietary regimens,physical activity regimens, ethnicity, age, gender, weight, sleepingbehaviors, etc.), condition-specific basis (e.g., subgroups exhibiting aspecific sleep-related condition, a combination of sleep-relatedconditions, triggers for the sleep-related conditions, associatedsymptoms, etc.), a sample type-specific basis (e.g., applying differentcomputer-implemented rules to process microbiome data derived fromdifferent collection sites; etc.), a user basis (e.g., differentcomputer-implemented rules for different users; etc.) and/or any othersuitable basis. As such, Block S130 can include assigning users from thepopulation of users to one or more subgroups; and applying differentcomputer-implemented rules for determining features (e.g., the set offeature types used; the types of characterization models generated fromthe features; etc.) for the different subgroups. However, applyingcomputer-implemented rules can be performed in any suitable manner.

In another variation, Block S130 can include processing (e.g.,generating, training, updating, executing, storing, etc.) one or moresleep-related characterization models (e.g., sleep-related conditionmodels, therapy models, etc.) for one or more sleep-related conditions(e.g., for outputting characterizations for users describing usermicrobiome characteristics in relation to sleep-related conditions;therapy models for outputting therapy determinations for one or moresleep-related conditions; etc.). The characterization models preferablyleverage microbiome features as inputs, and preferably outputsleep-related characterizations and/or any suitable components thereof;but characterization models can use any suitable inputs to generate anysuitable outputs. In an example, Block S130 can include transforming thesupplementary data, the microbiome composition diversity features, andthe microbiome functional diversity features, other microbiome features,outputs of sleep-related characterization models, and/or other suitabledata into one or more characterization models (e.g., training asleep-related characterization model based on the supplementary data andmicrobiome features; etc.) for one or more sleep-related conditions. Inanother example, the method 100 can include: determining a populationmicroorganism sequence dataset (e.g., including microorganism sequenceoutputs for different users of the population; etc.) for a population ofusers associated with one or more sleep-related conditions, based on aset of samples from the population of users (e.g., and/or based on oneor more primer types associated with the sleep-related condition; etc.);collecting a supplementary dataset associated with diagnosis of the oneor more sleep-related conditions for the population of subjects; andgenerating the sleep-related characterization model based on thepopulation microorganism sequence dataset and the supplementary dataset.In an example, the method 100 can include determining a set of usermicrobiome features for the user based on a sample from the user, wherethe set of user microbiome features is associated with microbiomefeatures associated with a set of subjects (e.g., microbiome featuresdetermined to be correlated with one or more sleep-related conditions,based on processing biological samples corresponding to a set ofsubjects associated with the one or more sleep-related conditions; a setmicrobiome composition features and the set of microbiome functionalfeatures; etc.); determining a sleep-related characterization, includingdetermining a therapy for the user for the one or more sleep-relatedconditions based on a therapy model and the set of user microbiomefeatures; providing the therapy (e.g., providing a recommendation forthe therapy to the user at a computing device associated with the user,etc.) and/or otherwise facilitating therapeutic intervention.

In another variation, as shown in FIGS. 8A-8C, different sleep-relatedcharacterization models and/or other suitable models (e.g., generatedwith different algorithms, with different sets of features, withdifferent input and/or output types, applied in different manners suchas in relation to time, frequency, component applying the model, etc.)can be generated for different sleep-related conditions, different userdemographic characteristics (e.g., based on age, gender, weight, height,ethnicity; etc.), different physiological sites (e.g., a gut site model,a nose site model, a skin site model, a mouth site model, a genitalssite model, etc.), individual users, supplementary data (e.g., modelsincorporating prior knowledge of microbiome features, sleep-relatedconditions, and/or other suitable components; features associated withbiometric sensor data and/or survey response data vs. models independentof supplementary data, etc.), and/or other suitable criteria.

In variations, determining sleep-related characterizations and/or anyother suitable characterizations can include determining sleep-relatedcharacterizations in relation to specific physiological sites (e.g.,gut, healthy gut, skin, nose, mouth, genitals, other suitablephysiological sites, other sample collection sites, etc.), such asthrough any one or more of: determining a sleep-related characterizationbased on a sleep-related characterization model derived based onsite-specific data (e.g., defining correlations between a sleep-relatedcondition and microbiome features associated with one or morephysiological sites); determining a sleep-related characterization basedon a user biological sample collected at one or more physiologicalsites, and/or any other suitable site-related processes. In examples,machine learning approaches (e.g., classifiers, deep learningalgorithms, SVM, random forest), parameter optimization approaches(e.g., Bayesian Parameter Optimization), validation approaches (e.g.,cross validation approaches), statistical tests (e.g., univariatestatistical techniques, multivariate statistical techniques, correlationanalysis such as canonical correlation analysis, etc.), dimensionreduction techniques (e.g. PCA), and/or other suitable analyticaltechniques (e.g., described herein) can be applied in determiningsite-related (e.g., physiological site-related, etc.) characterizations(e.g., using a one or more approaches for one or more sample collectionsites, such as for each type of sample collection site, etc.), othersuitable characterizations, therapies, and/or any other suitableoutputs. In a specific example, performing a characterization process(e.g., determining a sleep-related characterization; determiningmicrobiome features; based on a sleep-related characterization model;etc.) can include applying at least one of: machine learning approaches,parameter optimization approaches, statistical tests, dimensionreduction approaches, and/or other suitable approaches (e.g., wheremicrobiome features such as a set of microbiome composition diversityfeatures and/or a set of microbiome functional diversity features can beassociated with microorganisms collected at least at one of a gut site,a skin site, a nose site, a mouth site, a genitals site, etc.). Inanother specific example, characterization processes performed for aplurality of sample collection sites can be used to generate individualcharacterizations that can be combined to determine an aggregatecharacterization (e.g., an aggregate microbiome score, such as for oneor more conditions described herein, etc.). However, the method 100 caninclude determining any suitable site-related (e.g., site-specific)outputs, and/or performing any suitable portions of the method 100(e.g., collecting samples, processing samples, determining therapies)with site-specificity and/or other site-relatedness in any suitablemanner.

Characterization of the subject(s) can additionally or alternativelyimplement use of a high false positive test and/or a high false negativetest to further analyze sensitivity of the characterization process insupporting analyses generated according to embodiments of the method100. However, performing one or more characterization processes S130 canbe performed in any suitable manner.

4.3.A Sleep-related characterization process.

Performing a characterization process S130 can include performing asleep-related characterization process (e.g., determining acharacterization for one or more sleep-related conditions; determiningand/or applying one or more sleep-related characterization model; etc.)S135, such as for one or more users (e.g., for data corresponding tosamples from a set of subjects for generating one or more sleep-relatedcharacterization models; for a single user for generating asleep-related characterization for the user, such as through using oneor more sleep-related characterization models; etc.) and/or for one ormore sleep-related conditions.

In a variation, performing a sleep-related characterization process caninclude determining microbiome features associated with one or moresleep-related conditions (e.g., a sleep order condition. In an example,performing a sleep-related characterization process can include applyingone or more analytical techniques (e.g., statistical analyses) toidentify the sets of microbiome features (e.g., microbiome compositionfeatures, microbiome composition diversity features, microbiomefunctional features, microbiome functional diversity features, etc.)that have the highest correlations with one or more sleep-relatedconditions (e.g., features associated with a single sleep-relatedcondition, cross-condition features associated with multiplesleep-related conditions and/or other suitable sleep-related conditions,etc.). In a specific example, performing a sleep-relatedcharacterization process can facilitate therapeutic intervention for oneor more sleep-related conditions, such as through facilitatingintervention associated with therapies having a positive effect on astate of one or more users in relation to the one or more sleep-relatedconditions. In another specific example, performing a sleep-relatedcharacterization process (e.g., determining features highestcorrelations to one or more sleep-related conditions, etc.) can be basedupon a random forest predictor algorithm trained with a training datasetderived from a subset of the population of subjects (e.g., subjectshaving the one or more sleep-related conditions; subjects not having theone or more sleep-related conditions; etc.), and validated with avalidation dataset derived from a subset of the population of subjects.However, determining microbiome features and/or other suitable aspectsassociated with one or more sleep-related conditions can be performed inany suitable manner.

Microbiome features associated with one or more sleep-related conditions(e.g., positively correlated with; negatively correlated with; usefulfor diagnosis; etc.) can include features associated with anycombination of one or more of the following taxa (e.g., featuresdescribing abundance of; features describing relative abundance of;features describing functional aspects associated with; features derivedfrom; features describing presence and/or absence of; etc.) described inTable 1 (e.g., in relation to a sleep-related condition of bad sleepquality, etc.) and/or Table 2 (e.g., in relation to a sleep-relatedcondition of shift work, such as night time shift work with day timesleeping periods, etc.) and/or: Acetitomaculum (genus),Acidaminococcaceae (family), Acidaminococcus (genus), Acidaminococcussp. D21 (species), Actinobacteria (class), Actinobacteria (phylum),Actinomyces (genus), Actinomyces sp. ICM47 (species), Actinomyces sp.ICM54 (species), Actinomyces sp. S9 PR-21 (species), Akkermansiamuciniphila (species), Alcaligenaceae (family), Alistipes indistinctus(species), Alistipes sp. 627 (species), Anaerococcus (genus),Anaerococcus hydrogenalis (species), Anaerococcus octavius (species),Anaerococcus sp. 8404299 (species), Anaerococcus sp. 8405254 (species),Anaerococcus tetradius (species), Anaerofustis (genus), Anaerofustisstercorihominis (species), Anaeroplasma (genus), Anaerosporobacter(genus), Anaerostipes sp. 1y-2 (species), Anaerostipes sp. 3_2_56FAA(species), Anaerotruncus colihominis (species), Anaerotruncus sp. NML070203 (species), Atopobium (genus), Atopobium vaginae (species),Bacteroides clarus (species), Bacteroides coprocola (species),Bacteroides nordii (species), Bacteroides plebeius (species),Bacteroides sp. 2_2_4 (species), Bacteroides sp. CB57 (species),Bacteroides sp. DJF_B097 (species), Bacteroides sp. EBA5-17 (species),Bacteroides sp. SLC1-38 (species), Bacteroides sp. XB12B (species),Bacteroides stercorirosoris (species), Bifidobacteriaceae (family),Bifidobacteriales (order), Bifidobacterium (genus), Bifidobacteriumbiavatii (species), Bifidobacterium bifidum (species), Bifidobacteriumchoerinum (species), Bifidobacterium longum (species), Bifidobacteriummerycicum (species), Bifidobacterium sp. MSX5B (species),Bifidobacterium stercoris (species), Blautia glucerasea (species),Blautia hydrogenotrophica (species), Blautia sp. Ser8 (species), Blautiasp. YHC-4 (species), Brevibacterium massiliense (species),Butyricicoccus (genus), Butyricicoccus pullicaecorum (species),Butyricimonas synergistica (species), Butyrivibrio (genus), Butyrivibriocrossotus (species), Campylobacter (genus), Campylobacter hominis(species), Campylobacter ureolyticus (species), Campylobacteraceae(family), Campylobacterales (order), Candidatus Soleaferrea (genus),Candidatus Stoquefichus (genus), Catabacter hongkongensis (species),Catenibacterium mitsuokai (species), Cellulosilyticum (genus),Collinsella aerofaciens (species), Collinsella intestinalis (species),Coprobacillus (genus), Coprobacillus sp. D6 (species), Coprobacter(genus), Coprobacter fastidiosus (species), Corynebacterium sp.(species), Corynebacterium ulcerans (species), Cyanobacteria (phylum),Dermabacter (genus), Dermabacter hominis (species), Dermabacteraceae(family), Desulfovibrio desulfuricans (species), Desulfovibrio piger(species), Desulfovibrio sp. (species), Dialister (genus), Dialisterinvisus (species), Dialister propionicifaciens (species), Dielma(genus), Dielma fastidiosa (species), Eggerthella (genus), Eggerthellasp. HGA1 (species), Eisenbergiella tayi (species), Enterobacter (genus),Enterobacter sp. BS2-1 (species), Enterococcus sp. C6I11 (species),Epsilonproteobacteria (class), Erysipelatoclostridium ramosum (species),Eubacteriaceae (family), Eubacterium (genus), Eubacterium callanderi(species), Eubacterium sp. SA11 (species), Facklamia sp. 1440-97(species), Fibrobacter (genus), Flavobacterium (genus), Flavonifractorplautii (species), Fusobacteria (phylum), Fusobacteriaceae (family),Fusobacteriales (order), Fusobacteriia (class), Fusobacterium (genus),Fusobacterium equinum (species), Fusobacterium ulcerans (species),Gardnerella (genus), Gardnerella vaginalis (species), Gelria (genus),Gordonibacter (genus), Gordonibacter pamelaeae (species), Granulicatella(genus), Granulicatella adiacens (species), Haemophilus (genus),Haemophilus parainfluenzae (species), Herbaspirillum (genus),Herbaspirillum seropedicae (species), Holdemania (genus), Holdemaniafiliformis (species), Howardella (genus), Hydrogenoanaerobacterium(genus), Intestinibacter (genus), Klebsiella (genus), Kluyvera georgiana(species), Lachnospira (genus), Lactobacillus crispatus (species),Lactobacillus rhamnosus (species), Lactobacillus sp. 66c (species),Lactobacillus sp. Akhmr01 (species), Lactobacillus sp. BL302 (species),Lactobacillus sp. TAB-30 (species), Lactonifactor (genus), Lactonifactorlongoviformis (species), Leptotrichiaceae (family), Leuconostoc (genus),Leuconostocaceae (family), Megamonas (genus), Megamonas funiformis(species), Megasphaera (genus), Megasphaera genomosp. C1 (species),Megasphaera sp. S6-MB2 (species), Megasphaera sp. UPII 199-6 (species),Mobiluncus (genus), Mobiluncus mulieris (species), Moryella (genus),Negativicoccus (genus), Negativicoccus succinicivorans (species),Negativicutes (class), Oligella (genus), Oligella urethralis (species),Olsenella sp. 1183 (species), Oscillospiraceae (family), Pantoea(genus), Papillibacter (genus), Parabacteroides goldsteinii (species),Parabacteroides sp. 157 (species), Paraprevotella clara (species),Parvimonas micra (species), Pasteurellaceae (family), Pasteurellales(order), Peptoniphilus (genus), Peptoniphilus coxii (species),Peptoniphilus sp. 2002-2300004 (species), Peptoniphilus sp. 7-2(species), Peptoniphilus sp. gpac018A (species), Phascolarctobacterium(genus), Phascolarctobacterium succinatutens (species),Phyllobacteriaceae (family), Phyllobacterium (genus), Porphyromonasuenonis (species), Prevotella bivia (species), Prevotella disiens(species), Propionibacteriaceae (family), Propionibacterium (genus),Proteobacteria (phylum), Pseudobutyrivibrio (genus), Pseudoclavibactersp. Timone(species), Rhizobiales (order), Roseburia (genus),Ruminococcaceae (family), Sarcina ventriculi (species), Selenomonadalesorder Shuttleworthia (genus), Sphingomonadaceae (family),Sphingomonadales (order), Stenotrophomonas (genus), Stenotrophomonas sp.C-S-TSA3 (species), Streptococcus agalactiae (species), Streptococcusgordonii (species), Streptococcus pasteurianus (species), Streptococcusperoris (species), Streptococcus sp. BS35a (species), Streptococcus sp.oral taxon G59 (species), Sutterella (genus), Sutterella sp. YIT 12072(species), Sutterella stercoricanis (species), Sutterella wadsworthensis(species), Terrisporobacter glycolicus (species),Thermoanaerobacteraceae (family), Thermoanaerobacterales (order),Turicibacter (genus), Turicibacter sanguinis (species), Varibaculum(genus), Varibaculum cambriense (species), Veillonella sp. AS16(species), Veillonellaceae (family), Weissella hellenica (species),Xanthomonadaceae (family), Xanthomonadales (order), Alistipesmassiliensis (species), Butyricimonas virosa (species), Alistipesputredinis (species), Actinobacillus porcinus (species), Actinobacillus(genus), Butyricimonas (genus), Howardella ureilytica (species),Firmicutes (phylum), Clostridium (genus), Lentisphaeria (class),Anaeroplasmataceae (family), Pseudomonadaceae (family), Victivallaceae(family), Blautia (genus), Asteroleplasma (genus), Delftia (genus),Victivallis (genus), Peptostreptococcus (genus), Pseudomonas (genus),Alloprevotella (genus), Catenibacterium (genus), Anaeroplasmatales(order), Pseudomonadales (order), Lentisphaerae (phylum), Veillonellasp. CM60 (species), Porphyromonas sp. 2026 (species), Delftia sp.BN-SKY3 (species), Peptostreptococcus anaerobius (species), Citrobactersp. BW4 (species), Alistipes sp. RMA 9912 (species), Bacteroidesvulgatus (species), Lactobacillus sp. BL302 (species), Lactobacillus sp.TAB-26 (species), Bifidobacterium kashiwanohense (species),Butyricimonas sp. JCM 18677 (species) and/or any other suitable taxa(e.g., described herein, etc.).

In a first variation, microbiome features associated with one or moresleep-related conditions can include features associated with one ormore of the following taxa: Acetitomaculum (genus), Acidaminococcaceae(family), Acidaminococcus (genus), Acidaminococcus sp. D21 (species),Actinobacteria (class), Actinobacteria (phylum), Actinomyces (genus),Actinomyces sp. ICM47 (species), Actinomyces sp. ICM54 (species),Actinomyces sp. S9 PR-21 (species), Akkermansia muciniphila (species),Alcaligenaceae (family), Alistipes indistinctus (species), Alistipes sp.627 (species), Anaerococcus (genus), Anaerococcus hydrogenalis(species), Anaerococcus octavius (species), Anaerococcus sp. 8404299(species), Anaerococcus sp. 8405254 (species), Anaerococcus tetradius(species), Anaerofustis (genus), Anaerofustis stercorihominis (species),Anaeroplasma (genus), Anaerosporobacter (genus), Anaerostipes sp. 1y-2(species), Anaerostipes sp. 3—2_56FAA (species), Anaerotruncuscolihominis (species), Anaerotruncus sp. NML 070203 (species), Atopobium(genus), Atopobium vaginae (species), Bacteroides clarus (species),Bacteroides coprocola (species), Bacteroides nordii (species),Bacteroides plebeius (species), Bacteroides sp. 2_2_4 (species),Bacteroides sp. CB57 (species), Bacteroides sp. DJF_B097 (species),Bacteroides sp. EBA5-17 (species), Bacteroides sp. SLC1-38 (species),Bacteroides sp. XB12B (species), Bacteroides stercorirosoris (species),Bifidobacteriaceae (family), Bifidobacteriales (order), Bifidobacterium(genus), Bifidobacterium biavatii (species), Bifidobacterium bifidum(species), Bifidobacterium choerinum (species), Bifidobacterium longum(species), Bifidobacterium merycicum (species), Bifidobacterium sp.MSX5B (species), Bifidobacterium stercoris (species), Blautia glucerasea(species), Blautia hydrogenotrophica (species), Blautia sp. Ser8(species), Blautia sp. YHC-4 (species), Brevibacterium massiliense(species), Butyricicoccus (genus), Butyricicoccus pullicaecorum(species), Butyricimonas synergistica (species), Butyrivibrio (genus),Butyrivibrio crossotus (species), Campylobacter (genus), Campylobacterhominis (species), Campylobacter ureolyticus (species),Campylobacteraceae (family), Campylobacterales (order), CandidatusSoleaferrea (genus), Candidatus Stoquefichus (genus), Catabacterhongkongensis (species), Catenibacterium mitsuokai (species),Cellulosilyticum (genus), Collinsella aerofaciens (species), Collinsellaintestinalis (species), Coprobacillus (genus), Coprobacillus sp. D6(species), Coprobacter (genus), Coprobacter fastidiosus (species),Corynebacterium sp. (species), Corynebacterium ulcerans (species),Cyanobacteria (phylum), Dermabacter (genus), Dermabacter hominis(species), Dermabacteraceae (family), Desulfovibrio desulfuricans(species), Desulfovibrio piger (species), Desulfovibrio sp. (species),Dialister (genus), Dialister invisus (species), Dialisterpropionicifaciens (species), Dielma (genus), Dielma fastidiosa(species), Eggerthella (genus), Eggerthella sp. HGA1 (species),Eisenbergiella tayi (species), Enterobacter (genus), Enterobacter sp.BS2-1 (species), Enterococcus sp. C6I11 (species), Epsilonproteobacteria(class), Erysipelatoclostridium ramosum (species), Eubacteriaceae(family), Eubacterium (genus), Eubacterium callanderi (species),Eubacterium sp. SA11 (species), Facklamia sp. 1440-97 (species),Fibrobacter (genus), Flavobacterium (genus), Flavonifractor plautii(species), Fusobacteria (phylum), Fusobacteriaceae (family),Fusobacteriales (order), Fusobacteriia (class), Fusobacterium (genus),Fusobacterium equinum (species), Fusobacterium ulcerans (species),Gardnerella (genus), Gardnerella vaginalis (species), Gelria (genus),Gordonibacter (genus), Gordonibacter pamelaeae (species), Granulicatella(genus), Granulicatella adiacens (species), Haemophilus (genus),Haemophilus parainfluenzae (species), Herbaspirillum (genus),Herbaspirillum seropedicae (species), Holdemania (genus), Holdemaniafiliformis (species), Howardella (genus), Hydrogenoanaerobacterium(genus), Intestinibacter (genus), Klebsiella (genus), Kluyvera georgiana(species), Lachnospira (genus), Lactobacillus crispatus (species),Lactobacillus rhamnosus (species), Lactobacillus sp. 66c (species),Lactobacillus sp. Akhmr01 (species), Lactobacillus sp. BL302 (species),Lactobacillus sp. TAB-30 (species), Lactonifactor (genus), Lactonifactorlongoviformis (species), Leptotrichiaceae (family), Leuconostoc (genus),Leuconostocaceae (family), Megamonas (genus), Megamonas funiformis(species), Megasphaera (genus), Megasphaera genomosp. C1 (species),Megasphaera sp. S6-MB2 (species), Megasphaera sp. UPII 199-6 (species),Mobiluncus (genus), Mobiluncus mulieris (species), Moryella (genus),Negativicoccus (genus), Negativicoccus succinicivorans (species),Negativicutes (class), Oligella (genus), Oligella urethralis (species),Olsenella sp. 1183 (species), Oscillospiraceae (family), Pantoea(genus), Papillibacter (genus), Parabacteroides goldsteinii (species),Parabacteroides sp. 157 (species), Paraprevotella clara (species),Parvimonas micra (species), Pasteurellaceae (family), Pasteurellales(order), Peptoniphilus (genus), Peptoniphilus coxii (species),Peptoniphilus sp. 2002-2300004 (species), Peptoniphilus sp. 7-2(species), Peptoniphilus sp. gpac018A (species), Phascolarctobacterium(genus), Phascolarctobacterium succinatutens (species),Phyllobacteriaceae (family), Phyllobacterium (genus), Porphyromonasuenonis (species), Prevotella bivia (species), Prevotella disiens(species), Propionibacteriaceae (family), Propionibacterium (genus),Proteobacteria (phylum), Pseudobutyrivibrio (genus), Pseudoclavibactersp. Timone (species), Rhizobiales (order), Roseburia (genus),Ruminococcaceae (family), Sarcina ventriculi (species), Selenomonadalesorder Shuttleworthia (genus), Sphingomonadaceae (family),Sphingomonadales (order), Stenotrophomonas (genus), Stenotrophomonas sp.C-S-TSA3 (species), Streptococcus agalactiae (species), Streptococcusgordonii (species), Streptococcus pasteurianus (species), Streptococcusperoris (species), Streptococcus sp. BS35a (species), Streptococcus sp.oral taxon G59 (species), Sutterella (genus), Sutterella sp. YIT 12072(species), Sutterella stercoricanis (species), Sutterella wadsworthensis(species), (species), Thermoanaerobacteraceae (family),Thermoanaerobacterales (order), Turicibacter (genus), Turicibactersanguinis (species), Varibaculum (genus), Varibaculum cambriense(species), Veillonella sp. AS16 (species), Veillonellaceae (family),Weissella hellenica (species), Xanthomonadaceae (family),Xanthomonadales (order), and/or any other suitable taxa.

In a second variation, microbiome features associated with one or moresleep-related conditions (e.g., and/or behaviors and/or lifestyleconditions such as shift work, etc.) can include features associatedwith one or more of the following taxa: Alistipes massiliensis(species), Butyricimonas virosa (species), Leuconostocaceae (family),Lactobacillus sp. TAB-30 (species), Alistipes putredinis (species),Actinobacillus porcinus (species), Bifidobacterium stercoris (species),Actinobacillus (genus), Butyricimonas (genus), Howardella (genus),Catenibacterium mitsuokai (species), Howardella ureilytica (species),Firmicutes (phylum), Clostridium (genus), Lentisphaeria (class),Anaeroplasmataceae (family), Pseudomonadaceae (family), Victivallaceae(family), Blautia (genus), Asteroleplasma (genus), Delftia (genus),Victivallis (genus), Peptostreptococcus (genus), Pseudomonas (genus),Bifidobacterium (genus), Alloprevotella (genus), Catenibacterium(genus), Anaeroplasmatales (order), Pseudomonadales (order),Lentisphaerae (phylum), Veillonella sp. CM60 (species), Lactobacillussp. Akhmr01 (species), Porphyromonas sp. 2026 (species), Weissellahellenica (species), Delftia sp. BN-SKY3 (species), Peptostreptococcusanaerobius (species), Citrobacter sp. BW4 (species), Collinsellaintestinalis (species), Alistipes sp. RMA 9912 (species), Bacteroidesvulgatus (species), Lactobacillus sp. BL302 (species), Lactobacillus sp.TAB-26 (species), Bifidobacterium sp. (species), Prevotella bivia(species), Bifidobacterium kashiwanohense (species), Butyricimonas sp.JCM 18677 (species), Bifidobacterium stercoris (species), and/or anyother suitable taxa.

In an example, the method 100 can include determining a sleep-relatedcharacterization for the user for a first sleep-related condition and asecond sleep-related condition based on a first set of compositionfeatures (e.g., including at least one or more of the microbiomefeatures described above in relation to the first variation; includingany suitable combination of microbiome features; etc.), a firstsleep-related characterization model, a second set of compositionfeatures (e.g., including at least one or more of the microbiomefeatures described above in relation to the second variation; includingany suitable combination of microbiome features; etc.), and a secondsleep-related characterization model, where the first sleep-relatedcharacterization model is associated with the first sleep-relatedcondition (e.g., where the first sleep-related characterization modeldetermines characterizations for the first sleep-related condition,etc.), and where the second sleep-related characterization model isassociated with the second sleep-related condition (e.g., where thesecond sleep-related characterization model determines characterizationsfor the second sleep-related condition, etc.). In the example,determining user microbiome features can include determining first usermicrobiome functional features associated with first functions from atleast one of Cluster of Orthologous Groups (COG) database and KyotoEncyclopedia of Genes and Genomes (KEGG) database, where the first usermicrobiome functional features are associated with the firstsleep-related condition; and determining second user microbiomefunctional features associated with second functions from at least oneof the COG database and the KEGG database, where the second usermicrobiome functional features are associated with the secondsleep-related condition, where determining the sleep-relatedcharacterization can include determining the sleep-relatedcharacterization for the user for the first sleep-related condition andthe second sleep-related condition based on the first set of compositionfeatures, the first user microbiome functional features, the firstsleep-related characterization model, the second set of compositionfeatures, the second user microbiome functional features, and the secondsleep-related characterization model. Additionally or alternatively, anycombinations of microbiome features can be used with any suitable numberand types of sleep-related characterization models to determinesleep-related characterization for one or more sleep-related conditions,in any suitable manner.

Additionally or alternatively, microbiome features associated with oneor more sleep-related conditions can include microbiome functionalfeatures (e.g., features describing functions associated with one ormore microorganisms, such as microorganisms classified under taxadescribed herein; features describing functional diversity; featuresdescribing presence, absence, abundance, and/or relative abundance;etc.) corresponding to functions from and/or otherwise associated withthe Clusters of Orthologous Groups (COG) database, Kyoto Encyclopedia ofGenes and Genomes (KEGG) database, and/or any other suitable databaseavailable (e.g., databases with microorganism function data, etc.).However, microbiome features can include any suitable microbiomefunctional features associated with any suitable microorganism function,human function, and/or other suitable functionality. In examples, themethod 100 can include generating one or more sleep-relatedcharacterization models based on any suitable combination of microbiomefeatures described above and/or herein (e.g., based on a set ofmicrobiome composition features including features associated with atleast one of the taxa described herein; and/or based on microbiomefunctional features described herein, such as corresponding to functionsfrom databases described herein; etc.) In an example, performing acharacterization process for a user can include characterizing a user ashaving one or more sleep-related conditions, such as based upondetection of, values corresponding to, and/or other aspects related tomicrobiome features described herein (e.g., microbiome featuresdescribed above, etc.), and such as in a manner that is an additional(e.g., supplemental to, complementary to, etc.) or alternative totypical approaches of diagnosis, other characterizations (e.g.,treatment-related characterizations, etc.), treatment, monitoring,and/or other suitable approaches associated with sleep-relatedconditions. In variations, the microbiome features can be used fordiagnostics, other characterizations, treatment, monitoring, and/or anyother suitable purposes and/or approaches associated with sleep-relatedconditions. However, determining one or more sleep-relatedcharacterizations can be performed in any suitable manner.

4.3.B Determining a therapy.

Performing a characterization process S130 (e.g., performing asleep-related therapy) can include Block S140, which can includedetermining one or more therapies (e.g., therapies configured tomodulate microbiome composition, function, diversity, and/or othersuitable aspects, such as for improving one or more aspects associatedwith sleep-related conditions, such as in users characterized based onone or more characterization processes; etc.). Block S140 can functionto identify, select, rank, prioritize, predict, discourage, and/orotherwise determine therapies (e.g., facilitate therapy determination,etc.). For example, Block S140 can include determining one or more ofprobiotic-based therapies, bacteriophage-based therapies, smallmolecule-based therapies, and/or other suitable therapies, such astherapies that can shift a subject's microbiome composition, function,diversity, and/or other characteristics (e.g., microbiomes at anysuitable sites, etc.) toward a desired state (e.g., equilibrium state,etc.) in promotion of a user's health, for modifying a state of one ormore sleep-related conditions, and/or for other suitable purposes.

Therapies (e.g., sleep-related therapies, etc.) can include any one ormore of: consumables (e.g., probiotic therapies, prebiotic therapies,medication, sleeping pills, melatonin supplements, allergy or coldmedication, bacteriophage-based therapies, consumables for underlyingconditions, small molecule therapies, etc.); device-related therapies(e.g., sleep-monitoring devices, such as a user device executing asleep-monitoring application, sensor-based devices; dental guards;breathing devices; medical devices; implantable medical devices; sleepapnea devices such as continuous positive airway pressure devices,mandibular advancement devices, tongue retaining devices; stimulationdevices such as electrostimulation devices, nerve stimulation devices;snoring prevention devices; catheters such as transtracheal catheters;nasal air filters; air quality devices such as air filtration devices;audio-based devices such as white noise machines; etc.); surgicaloperations (e.g., sleep apnea surgery; tonsillectomy; adenoidectomy;supraglottoplasty; turbinoplasty; septoplasty; septorhinoplasty; nasalsurgeries; soft palate surgeries; oropharyngeal surgeries;hypopharyngeal surgeries; tracheostomies; maxillomandibular advancement;uvulopalatopharyngoplasty; hyoid suspension; genioglossus advancement;etc.); psychological-associated therapies (e.g., cognitive behavioraltherapy, anxiety therapy, talking therapy, psychodynamic therapy,action-oriented therapy, rational emotive behavior therapy,interpersonal psychotherapy, relaxation training, deep breathingtechniques, progressive muscle relaxation, sleep restriction therapy,meditation, etc.); behavior modification therapies (e.g., physicalactivity recommendations such as increased exercise; dietaryrecommendations such as reducing sugar intake, increased vegetableintake, increased fish intake, decreased caffeine consumption, decreasedalcohol consumption, decreased carbohydrate intake; smokingrecommendations such as decreasing tobacco intake; weight-relatedrecommendations; sleep habit recommendations; device recommendationssuch as decreased electronic device usage before bedtime;recommendations in relation to other behaviors; etc.); topicaladministration therapies (e.g., bacteriophage-based therapies);environmental factor modification therapies; (e.g., adjusting lightingfor sleep time and/or wake time; adjusting bedding-related factors;modification of other environmental factors; etc.); modification of anyother suitable aspects associated with one or more sleep-relatedconditions; and/or any other suitable therapies (e.g., for improving ahealth state associated with one or more sleep-related conditions, suchas therapies for improving one or more sleep-related conditions,therapies for reducing the risk of one or more sleep-related conditions,etc.). In examples, types of therapies can include any one or more of:probiotic therapies, bacteriophage-based therapies, small molecule-basedtherapies, cognitive/behavioral therapies, physical rehabilitationtherapies, clinical therapies, medication-based therapies, diet-relatedtherapies, and/or any other suitable therapy designed to operate in anyother suitable manner in promoting a user's health.

In a variation, therapies can include one or more bacteriophage-basedtherapies (e.g., in the form of a consumable, in the form of a topicaladministration therapy, etc.), where one or more populations (e.g., interms of colony forming units) of bacteriophages specific to a certainbacteria (or other microorganism) represented in the subject can be usedto down-regulate or otherwise eliminate populations of the certainbacteria. As such, bacteriophage-based therapies can be used to reducethe size(s) of the undesired population(s) of bacteria represented inthe subject. Additionally or alternatively, bacteriophage-basedtherapies can be used to increase the relative abundances of bacterialpopulations not targeted by the bacteriophage(s) used. However,bacteriophage-based therapies can be used to modulate characteristics ofmicrobiomes (e.g., microbiome composition, microbiome function, etc.) inany suitable manner, and/or can be used for any suitable purpose.

In a variation, therapies can include one or more probiotic therapiesand/or prebiotic therapies associated with any combination of at leastone or more of (e.g., including any combination of one or more of, etc.)any suitable taxa described in Table 1 (e.g., in relation to therapiesfor a sleep-related condition of bad sleep quality, etc.) and/or Table 2(e.g., in relation to therapies for a sleep-related condition for shiftwork, etc.) and/or: Anaerococcus sp. 8405254, Bacteroides nordii,Bacteroides sp. SLC1-38, Bifidobacterium merycicum, Blautia glucerasea,Blautia sp. YHC-4, Butyrivibrio crossotus, Catabacter hongkongensis,Catenibacterium mitsuokai, Collinsella aerofaciens, Collinsellaintestinalis, Desulfovibrio piger, Eubacterium sp. SA11, Fusobacteriumulcerans, Lactobacillus sp. TAB-30, Megamonas funiformis, Megasphaerasp. S6-MB2, Olsenella sp. 1183, Phascolarctobacterium succinatutens,Streptococcus gordonii, Sutterella sp. YIT 12072, Sutterellawadsworthensis, Veillonella sp. AS16, Fusobacterium equinum, Facklamiasp. 1440-97, Anaerostipes sp. 3_2_56FAA, Pseudoclavibacter sp. Timone,Parvimonas micra, Lactobacillus sp. 66c, Bacteroides coprocola,Corynebacterium ulcerans, Anaerostipes sp. 1y-2, Sarcina ventriculi,Lactonifactor longoviformis, Enterococcus sp. C6I11, Eubacteriumcallanderi, Dialister invisus, Blautia sp. Ser8, Bacteroides plebeius,Bacteroides sp. 2_2_4, Anaerotruncus colihominis, Varibaculumcambriense, Actinomyces sp. S9 PR-21, Desulfovibrio sp., Prevotelladisiens, Mobiluncus mulieris, Lactobacillus rhamnosus, Bifidobacteriumsp. MSX5B, Acidaminococcus sp. D21, Bifidobacterium bifidum, Bacteroidessp. EBA5-17, Anaerococcus hydrogenalis, Alistipes sp. 627,Negativicoccus succinicivorans, Anaerococcus sp. 8404299, Butyricimonassynergistica, Actinomyces sp. ICM54, Turicibacter sanguinis, Blautiahydrogenotrophica, Parabacteroides goldsteinii, Bifidobacteriumbiavatii, Erysipelatoclostridium ramosum, Anaerofustis stercorihominis,Gardnerella vaginalis, Gordonibacter pamelaeae, Campylobacter hominis,Lactobacillus sp. BL302, Megasphaera sp. UPII 199-6, Peptoniphilus sp.gpac018A, Bifidobacterium stercoris, Butyricicoccus pullicaecorum,Megasphaera sp. S6-MB2, Corynebacterium sp., Dialisterpropionicifaciens, Anaerococcus tetradius, Eggerthella sp. HGA1,Peptoniphilus sp. 7-2, Terrisporobacter glycolicus, Peptoniphilus sp.2002-2300004, Bacteroides sp. CB57, Streptococcus pasteurianus,Megasphaera genomosp. C1, Holdemania filiformis, Coprobacillus sp. D6,Dielma fastidiosa, Sutterella stercoricanis, Brevibacterium massiliense,Bacteroides stercorirosoris, Lactobacillus sp. Akhmr01, Actinomyces sp.ICM47, Lactobacillus crispatus, Prevotella bivia, Enterobacter sp.BS2-1, Streptococcus sp. BS35a, Anaerotruncus sp. NML 070203,Haemophilus parainfluenzae, Peptoniphilus coxii, Granulicatellaadiacens, Campylobacter ureolyticus, Bifidobacterium longum, Bacteroidesclarus, Bacteroides sp. XB12B, Streptococcus agalactiae, Kluyverageorgiana, Flavonifractor plautii, Paraprevotella clara,Stenotrophomonas sp. C-S-TSA3, Bacteroides sp. DJF_B097, Herbaspirillumseropedicae, Streptococcus sp. oral taxon G59, Eisenbergiella tayi,Coprobacter fastidiosus, Oligella urethralis, Akkermansia muciniphila,Desulfovibrio desulfuricans, Streptococcus peroris, Anaerococcusoctavius, Atopobium vaginae, Parabacteroides sp. 157, Bifidobacteriumchoerinum, Porphyromonas uenonis, Dermabacter hominis, Alistipesindistinctus, Weissella hellenica, Alistipes massiliensis, Butyricimonasvirosa, Alistipes putredinis, Actinobacillus porcinus, Howardellaureilytica, Veillonella sp. CM60, Porphyromonas sp. 2026, Delftia sp.BN-SKY3, Peptostreptococcus anaerobius, Citrobacter sp. BW4, Alistipessp. RMA 9912, Bacteroides vulgatus, Lactobacillus sp. TAB-26,Bifidobacterium sp., Bifidobacterium kashiwanohense, Butyricimonas sp.JCM 18677, and/or any other suitable microorganisms associated with anysuitable taxonomic groups (e.g., microorganisms from taxa describedherein, such as in relation to microbiome features, etc.). For one ormore probiotic therapies and/or other suitable therapies, microorganismsassociated with a given taxonomic group, and/or any suitable combinationof microorganisms can be provided at dosages of 0.1 million to 10billion CFU, and/or at any suitable amount (e.g., as determined from atherapy model that predicts positive adjustment of a patient'smicrobiome in response to the therapy, etc.). In an example, a subjectcan be instructed to ingest capsules including the probiotic formulationaccording to a regimen tailored to one or more of his/her: physiology(e.g., body mass index, weight, height), demographic characteristics(e.g., gender, age), severity of dysbiosis, sensitivity to medications,and any other suitable factor.

In a specific example of probiotic therapies, as shown in FIG. 4,candidate therapies of the therapy model can perform one or more of:blocking pathogen entry into an epithelial cell by providing a physicalbarrier (e.g., by way of colonization resistance), inducing formation ofa mucous barrier by stimulation of goblet cells, enhance integrity ofapical tight junctions between epithelial cells of a subject (e.g., bystimulating up regulation of zona-occludens 1, by preventing tightjunction protein redistribution), producing antimicrobial factors,stimulating production of anti-inflammatory cytokines (e.g., bysignaling of dendritic cells and induction of regulatory T-cells),triggering an immune response, and performing any other suitablefunction that adjusts a subject's microbiome away from a state ofdysbiosis. In another specific example, therapies can includemedical-device based therapies (e.g., associated with human behaviormodification, associated with treatment of disease-related conditions,etc.).

In variations, the therapy model is preferably based upon data from alarge population of subjects, which can include the population ofsubjects from which the microbiome diversity datasets are derived inBlock S110, where microbiome composition and/or functional features orstates of health, prior exposure to and post exposure to a variety oftherapeutic measures, are well characterized. Such data can be used totrain and validate the therapy provision model, in identifyingtherapeutic measures that provide desired outcomes for subjects basedupon different sleep-related characterizations. In variations, supportvector machines, as a supervised machine learning algorithm, can be usedto generate the therapy provision model. However, any other suitablemachine learning algorithm described above can facilitate generation ofthe therapy provision model.

Additionally or alternatively, the therapy model can be derived inrelation to identification of a “normal” or baseline microbiomecomposition and/or functional features, as assessed from subjects of apopulation of subjects who are identified to be in good health. Uponidentification of a subset of subjects of the population of subjects whoare characterized to be in good health (e.g., using features of thecharacterization process), therapies that modulate microbiomecompositions and/or functional features toward those of subjects in goodhealth can be generated in Block S140. Block S140 can thus includeidentification of one or more baseline microbiome compositions and/orfunctional features (e.g., one baseline microbiome for each of a set ofdemographic characteristics), and potential therapy formulations andtherapy regimens that can shift microbiomes of subjects who are in astate of dysbiosis toward one of the identified baseline microbiomecompositions and/or functional features. The therapy model can, however,be generated and/or refined in any other suitable manner.

Microorganism compositions associated with probiotic therapies and/orprebiotic therapies (e.g., associated with probiotic therapiesdetermined by a therapy model applied by a therapy facilitation system,etc.) can include microorganisms that are culturable (e.g., able to beexpanded to provide a scalable therapy) and/or non-lethal (e.g.,non-lethal in their desired therapeutic dosages). Furthermore,microorganism compositions can include a single type of microorganismthat has an acute or moderated effect upon a subject's microbiome.Additionally or alternatively, microorganism compositions can includebalanced combinations of multiple types of microorganisms that areconfigured to cooperate with each other in driving a subject'smicrobiome toward a desired state. For instance, a combination ofmultiple types of bacteria in a probiotic therapy can include a firstbacteria type that generates products that are used by a second bacteriatype that has a strong effect in positively affecting a subject'smicrobiome. Additionally or alternatively, a combination of multipletypes of bacteria in a probiotic therapy can include several bacteriatypes that produce proteins with the same functions that positivelyaffect a subject's microbiome.

Probiotic and/or prebiotic compositions can be naturally orsynthetically derived. For instance, in one application, a probioticcomposition can be naturally derived from fecal matter or otherbiological matter (e.g., of one or more subjects having a baselinemicrobiome composition and/or functional features, as identified usingthe characterization process and the therapy model). Additionally oralternatively, probiotic compositions can be synthetically derived(e.g., derived using a benchtop method) based upon a baseline microbiomecomposition and/or functional features, as identified using thecharacterization process and the therapy model. In variations,microorganism agents that can be used in probiotic therapies can includeone or more of: yeast (e.g., Saccharomyces boulardii), gram-negativebacteria (e.g., E. coli Nissle), gram-positive bacteria (e.g.,Bifidobacteria bifidum, Bifidobacteria infantis, Lactobacillusrhamnosus, Lactococcus lactis, Lactobacillus plantarum, Lactobacillusacidophilus, Lactobacillus casei, Bacillus polyfermenticus, etc.), andany other suitable type of microorganism agent. However, probiotictherapies, prebiotic therapies and/or other suitable therapies caninclude any suitable combination of microorganisms associated with anysuitable taxa described herein, and/or therapies can be configured inany suitable manner.

Block S140 can include executing, storing, retrieving, and/or otherwiseprocessing one or more therapy models for determining one or moretherapies. Processing one or more therapy models is preferably based onmicrobiome features. For example, generating a therapy model can basedon microbiome features associated with one or more sleep-relatedconditions, therapy-related aspects such as therapy efficacy in relationto microbiome characteristics, and/or other suitable data. Additionallyor alternatively, processing therapy models can be based on any suitabledata. In an example, processing a therapy model can include determiningone or more therapies for a user based on one or more therapy models,user microbiome features (e.g., inputting user microbiome feature valuesinto the one or more therapy models, etc.), supplementary data (e.g.,prior knowledge associated with therapies such as in relation tomicroorganism-related metabolization; user medical history; userdemographic data, such as describing demographic characteristics; etc.),and/or any other suitable data. However, processing therapy models canbe based on any suitable data in any suitable manner.

Sleep-related characterization models can include one or more therapymodels. In an example, determining one or more sleep-relatedcharacterizations (e.g., for one or more users, for one or moresleep-related conditions, etc.), can include determining one or moretherapies, such as based on one or more therapy models (e.g., applyingone or more therapy models, etc.) and/or other suitable data (e.g.,microbiome features such as user microbiome features, microorganismdataset such as user microorganism datasets, etc.). In a specificexample, determining one or more sleep-related characterizations caninclude determining a first sleep-related characterization for a user(e.g., describing propensity for one or more sleep-related conditions;etc.); and determining a second sleep-related characterization for theuser based on the first sleep-related characterization (e.g.,determining one or more therapies, such as for recommendation to a user,based on the propensity for one or more sleep-related conditions; etc.).In a specific example, a sleep-related characterization can include bothpropensity-related data (e.g., diagnostic data; associated microbiomecomposition, function, diversity, and/or other characteristics; etc.)and therapy-related data (e.g., recommended therapies; potentialtherapies; etc.). However, sleep-related characterizations can includeany suitable data (e.g., any combination of data described herein,etc.).

Processing therapy models can include processing a plurality of therapymodels. For example, different therapy models can be processed fordifferent therapies (e.g., different models for different individualtherapies; different models for different combinations and/or categoriesof therapies, such as a first therapy model for determining consumabletherapies and a second therapy model for determiningpsychological-associated therapies; etc.). In an example, differenttherapy models can be processed for different sleep-related conditions,(e.g., different models for different individual sleep-relatedconditions; different models for different combinations and/orcategories of sleep-related conditions, such as a first therapy modelfor determining therapies for insomnias, and a second therapy model fordetermining therapies for hypersomnias, etc.). Additionally oralternatively, processing a plurality of therapy models can be performedfor (e.g., based on; processing different therapy models for; etc.) anysuitable types of data and/or entities. However, processing a pluralityof therapy models can be performed in any suitable manner, anddetermining and/or applying one or more therapy models can be performedin any suitable manner.

4.4 Processing a User Biological Sample.

The method 100 can additionally or alternatively include Block S150,which can include processing one or more biological samples from a user(e.g., biological samples from different collection sites of the user,etc.). Block S150 can function to facilitate generation of amicroorganism dataset for a user, such as for use in deriving inputs forthe characterization process (e.g., for generating a sleep-relatedcharacterization for the user, such as through applying one or moresleep-related characterization models, etc.). As such, Block S150 caninclude receiving, processing, and/or analyzing one or more biologicalsamples from one or more users (e.g., multiple biological samples forthe same user over time, different biological samples for differentusers, etc.). In Block S150, the biological sample is preferablygenerated from the user and/or an environment of the user in anon-invasive manner. In variations, non-invasive manners of samplereception can use any one or more of: a permeable substrate (e.g., aswab configured to wipe a region of a user's body, toilet paper, asponge, etc.), a non-permeable substrate (e.g., a slide, tape, etc.) acontainer (e.g., vial, tube, bag, etc.) configured to receive a samplefrom a region of a user's body, and any other suitable sample-receptionelement. In a specific example, the biological sample can be collectedfrom one or more of the user's nose, skin, genitals, mouth, and gut(e.g., through stool samples, etc.) in a non-invasive manner (e.g.,using a swab and a vial). However, the biological sample canadditionally or alternatively be received in a semi-invasive manner oran invasive manner. In variations, invasive manners of sample receptioncan use any one or more of: a needle, a syringe, a biopsy element, alance, and any other suitable instrument for collection of a sample in asemi-invasive or invasive manner. In specific examples, samples caninclude blood samples, plasma/serum samples (e.g., to enable extractionof cell-free DNA), and tissue samples.

In the above variations and examples, the biological sample can be takenfrom the body of the user without facilitation by another entity (e.g.,a caretaker associated with a user, a health care professional, anautomated or semi-automated sample collection apparatus, etc.), or canalternatively be taken from the body of the user with the assistance ofanother entity. In one example, where the biological sample is takenfrom the user without facilitation by another entity in the sampleextraction process, a sample-provision kit can be provided to the user.In the example, the kit can include one or more swabs for sampleacquisition, one or more containers configured to receive the swab(s)for storage, instructions for sample provision and setup of a useraccount, elements configured to associate the sample(s) with the user(e.g., barcode identifiers, tags, etc.), and a receptacle that allowsthe sample(s) from the user to be delivered to a sample processingoperation (e.g., by a mail delivery system). In another example, wherethe biological sample is extracted from the user with the help ofanother entity, one or more samples can be collected in a clinical orresearch setting from the user (e.g., during a clinical appointment).The biological sample can, however, be received from the user in anyother suitable manner.

Furthermore, processing and analyzing biological samples (e.g., togenerate a user microorganism dataset; etc.) from the user is preferablyperformed in a manner similar to that of one of the embodiments,variations, and/or examples of sample reception described in relation toBlock 110 above, and/or any other suitable portions of the method 100and/or system 200. As such, reception and processing of the biologicalsample in Block S150 can be performed for the user using similarprocesses as those for receiving and processing biological samples usedto perform the characterization processes of the method 100, such as inorder to provide consistency of process. However, biological samplereception and processing in Block S150 can additionally or alternativelybe performed in any other suitable manner.

4.5 Determining a Sleep-Related Characterization.

The method 100 can additionally or alternatively include Block S160,which can include determining, with one or more characterizationprocesses (e.g., one or more characterization processes described inrelation to Block S130, etc.), a sleep-related characterization for theuser, such as based upon processing one or more microorganism dataset(e.g., user microorganism sequence dataset, microbiome compositiondataset, microbiome functional diversity dataset; processing of themicroorganism dataset to extract user microbiome features that can beused to determine the one or more sleep-related characterizations; etc.)derived from the biological sample of the user. Block S160 can functionto characterize one or more sleep-related conditions for a user, such asthrough extracting features from microbiome-derived data of the user,and using the features as inputs into an embodiment, variation, orexample of the characterization process described in Block S130 above(e.g., using the user microbiome feature values as inputs into amicrobiome-related condition characterization model, etc.). In anexample, Block S160 can include generating a sleep-relatedcharacterization for the user based on user microbiome features and asleep-related condition model (e.g., generated in Block S130).Sleep-related characterizations can be for any number and/or combinationof sleep-related conditions (e.g., a combination of sleep-relatedconditions, a single sleep-related condition, and/or other suitablesleep-related conditions; etc.), users, collection sites, and/or othersuitable entities. Sleep-related characterizations can include one ormore of: diagnoses (e.g., presence or absence of a sleep-relatedcondition; etc.); risk (e.g., risk scores for developing and/or thepresence of a sleep-related condition; information regardingsleep-related characterizations (e.g., symptoms, signs, triggers,associated conditions, etc.); comparisons (e.g., comparisons with othersubgroups, populations, users, historic health statuses of the user suchas historic microbiome compositions and/or functional diversities;comparisons associated with sleep-related conditions; etc.); therapydeterminations; other suitable outputs associated with characterizationprocesses; and/or any other suitable data.

In another variation, a sleep-related characterization can include amicrobiome diversity score (e.g., in relation to microbiome composition,function, etc.) associated with (e.g., correlated with; negativelycorrelated with; positively correlated with; etc.) a microbiomediversity score correlated with one or more sleep-related conditions. Inexamples, the sleep-related characterization can include microbiomediversity scores over time (e.g., calculated for a plurality ofbiological samples of the user collected over time), comparisons tomicrobiome diversity scores for other users, and/or any other suitabletype of microbiome diversity score. However, processing microbiomediversity scores (e.g., determining microbiome diversity scores; usingmicrobiome diversity scores to determine and/or provide therapies; etc.)can be performed in any suitable manner.

Determining a sleep-related characterization in Block S160 preferablyincludes determining features and/or combinations of features associatedwith the microbiome composition and/or functional features of the user(e.g., determining feature values associated with the user, the featurevalues corresponding to microbiome features determined in Block S130,etc.), inputting the features into the characterization process, andreceiving an output that characterizes the user as belonging to one ormore of: a behavioral group, a gender group, a dietary group, adisease-state group, and any other suitable group capable of beingidentified by the characterization process. Block S160 can additionallyor alternatively include generation of and/or output of a confidencemetric associated with the characterization of the user. For instance, aconfidence metric can be derived from the number of features used togenerate the characterization, relative weights or rankings of featuresused to generate the characterization, measures of bias in thecharacterization process, and/or any other suitable parameter associatedwith aspects of the characterization process. However, leveraging usermicrobiome features can be performed in any suitable manner to generateany suitable sleep-related characterizations.

In some variations, features extracted from the microorganism dataset ofthe user can be supplemented with supplementary features (e.g.,extracted from supplementary data collected for the user; such assurvey-derived features, medical history-derived features, sensor data,etc.), where such data, the user microbiome data, and/or other suitabledata can be used to further refine the characterization process of BlockS130, Block S160, and/or other suitable portions of the method 100.

Determining a sleep-related characterization preferably includesextracting and applying user microbiome features (e.g., user microbiomecomposition diversity features; user microbiome functional diversityfeatures; etc.) for the user (e.g., based on a user microorganismdataset), characterization models, and/or other suitable components,such as by employing processes described in Block S130, and/or byemploying any suitable approaches described herein.

In variations, as shown in FIG. 6, Block S160 can include presentingsleep-related characterizations (e.g., information extracted from thecharacterizations; as part of facilitating therapeutic intervention;etc.), such as at a web interface, a mobile application, and/or anyother suitable interface, but presentation of information can beperformed in any suitable manner. However, the microorganism dataset ofthe user can additionally or alternatively be used in any other suitablemanner to enhance the models of the method 100, and Block S160 can beperformed in any suitable manner.

4.6 Facilitating Therapeutic Intervention.

As shown in FIG. 9, the method 100 can additionally or alternativelyinclude Block S170, which can include facilitating therapeuticintervention (e.g., promoting therapies, providing therapies,facilitating provision of therapies, etc.) for one or more sleep-relatedconditions for one or more users (e.g., based upon a sleep-relatedcharacterization and/or a therapy model). Block S170 can function torecommend, promote, provide, and/or otherwise facilitate therapeuticintervention in relation to one or more therapies for a user, such as toshift the microbiome composition and/or functional diversity of a usertoward a desired equilibrium state (and/or otherwise improving a stateof the sleep-related condition, etc.) in relation to one or moresleep-related conditions. Block S170 can include provision of acustomized therapy to the user according to their microbiome compositionand functional features, where the customized therapy can include aformulation of microorganisms configured to correct dysbiosischaracteristic of users having the identified characterization. As such,outputs of Block S140 can be used to directly promote a customizedtherapy formulation and regimen (e.g., dosage, usage instructions) tothe user based upon a trained therapy model. Additionally oralternatively, therapy provision can include recommendation of availabletherapeutic measures configured to shift microbiome composition and/orfunctional features toward a desired state. In variations, therapies caninclude any one or more of: consumables, topical therapies (e.g.,lotions, ointments, antiseptics, etc.), medication (e.g., medicationsassociated with any suitable medication type and/or dosage, etc.),bacteriophages, environmental treatments, behavioral modification (e.g.,diet modification therapies, stress-reduction therapies, physicalactivity-related therapies, etc.), diagnostic procedures, othermedical-related procedures, and/or any other suitable therapiesassociated with sleep-related conditions. Consumables can include anyone or more of: food and/or beverage items (e.g., probiotic and/orprebiotic food and/or beverage items, etc.), nutritional supplements(e.g., vitamins, minerals, fiber, fatty acids, amino acids, prebiotics,probiotics, etc.), consumable medications, and/or any other suitabletherapeutic measure.

For example, a combination of commercially available probioticsupplements can include a suitable probiotic therapy for the useraccording to an output of the therapy model. In another example, themethod 100 can include determining a sleep-related condition risk forthe user for the sleep-related condition based on a sleep-relatedcondition model (e.g., and/or user microbiome features); and promoting atherapy to the user based on the sleep-related condition risk.

In a variation, facilitating therapeutic intervention can includepromoting a diagnostic procedure (e.g., for facilitating detection ofsleep-related conditions, which can motivate subsequent promotion ofother therapies, such as for modulation of a user microbiome forimproving a user health state associated with one or more sleep-relatedconditions; etc.). Diagnostic procedures can include any one or more of:medical history analyses, imaging examinations, cell culture tests,antibody tests, skin prick testing, patch testing, blood testing,challenge testing, performing portions of the method 100, and/or anyother suitable procedures for facilitating the detecting (e.g.,observing, predicting, etc.) of sleep-related conditions. Additionallyor alternatively, diagnostic device-related information and/or othersuitable diagnostic information can be processed as part of asupplementary dataset (e.g., in relation to Block S120, where such datacan be used in determining and/or applying characterization models,therapy models, and/or other suitable models; etc.), and/or collected,used, and/or otherwise processed in relation to any suitable portions ofthe method 100 (e.g., administering diagnostic procedures for users formonitoring therapy efficacy in relation to Block S180; etc.)

In another variation, Block S170 can include promoting abacteriophage-based therapy. In more detail, one or more populations(e.g., in terms of colony forming units) of bacteriophages specific to acertain bacteria (or other microorganism) represented in the user can beused to down-regulate or otherwise eliminate populations of the certainbacteria. As such, bacteriophage-based therapies can be used to reducethe size(s) of the undesired population(s) of bacteria represented inthe user. Complementarily, bacteriophage-based therapies can be used toincrease the relative abundances of bacterial populations not targetedby the bacteriophage(s) used.

In another variation, facilitating therapeutic intervention (e.g.,providing therapies, etc.) can include provision of notifications to auser regarding the recommended therapy, other forms of therapy,sleep-related characterizations, and/or other suitable data. In aspecific example, providing a therapy to a user can include providingtherapy recommendations (e.g., substantially concurrently with providinginformation derived from a sleep-related characterization for a user;etc.) and/or other suitable therapy-related information (e.g., therapyefficacy; comparisons to other individual users, subgroups of users,and/or populations of users; therapy comparisons; historic therapiesand/or associated therapy-related information; psychological therapyguides such as for cognitive behavioral therapy; etc.), such as throughpresenting notifications at a web interface (e.g., through a useraccount associated with and identifying a user; etc.). Notifications canbe provided to a user by way of an electronic device (e.g., personalcomputer, mobile device, tablet, wearable, head-mounted wearablecomputing device, wrist-mounted wearable computing device, etc.) thatexecutes an application, web interface, and/or messaging clientconfigured for notification provision. In one example, a web interfaceof a personal computer or laptop associated with a user can provideaccess, by the user, to a user account of the user, where the useraccount includes information regarding the user's sleep-relatedcharacterization, detailed characterization of aspects of the user'smicrobiome (e.g., in relation to correlations with sleep-relatedconditions; etc.), and/or notifications regarding suggested therapeuticmeasures (e.g., generated in Blocks S140 and/or S170, etc.). In anotherexample, an application executing at a personal electronic device (e.g.,smart phone, smart watch, head-mounted smart device) can be configuredto provide notifications (e.g., at a display, haptically, in an auditorymanner, etc.) regarding therapy suggestions generated by the therapymodel of Block S170. Notifications and/or probiotic therapies canadditionally or alternatively be provided directly through an entityassociated with a user (e.g., a caretaker, a spouse, a significantother, a healthcare professional, etc.). In some further variations,notifications can additionally or alternatively be provided to an entity(e.g., healthcare professional) associated with a user, such as wherethe entity is able to facilitate provision of the therapy (e.g., by wayof prescription, by way of conducting a therapeutic session, through adigital telemedicine session using optical and/or audio sensors of acomputing device, etc.). Providing notifications and/or otherwisefacilitating therapeutic, however, be performed in any suitable manner.

4.7 Monitoring Therapy Effectiveness.

As shown in FIG. 7, the method can additionally or alternatively includeBlock S180, which can include: monitoring effectiveness of one or moretherapies and/or monitoring other suitable components (e.g., microbiomecharacteristics, etc.) for the user (e.g., based upon processing aseries of biological samples from the user), over time. Block S180 canfunction to gather additional data regarding positive effects, negativeeffects, and/or lack of effectiveness of one or more therapies (e.g.,suggested by the therapy model for users of a given characterization,etc.) and/or monitoring microbiome characteristics (e.g., to assessmicrobiome composition and/or functional features for the user at a setof time points, etc.).

Monitoring of a user during the course of a therapy promoted by thetherapy model (e.g., by receiving and analyzing biological samples fromthe user throughout therapy, by receiving survey-derived data from theuser throughout therapy) can thus be used to generate atherapy-effectiveness model for each characterization provided by thecharacterization process of Block S130, and each recommended therapymeasure provided in Blocks S140 and S170.

In Block S180, the user can be prompted to provide additional biologicalsamples, supplementary data, and/or other suitable data at one or morekey time points of a therapy regimen that incorporates the therapy, andthe additional biological sample(s) can be processed and analyzed (e.g.,in a manner similar to that described in relation to Block S120) togenerate metrics characterizing modulation of the user's microbiomecomposition and/or functional features. For instance, metrics related toone or more of: a change in relative abundance of one or more taxonomicgroups represented in the user's microbiome at an earlier time point, achange in representation of a specific taxonomic group of the user'smicrobiome, a ratio between abundance of a first taxonomic group ofbacteria and abundance of a second taxonomic group of bacteria of theuser's microbiome, a change in relative abundance of one or morefunctional families in a user's microbiome, and any other suitablemetrics can be used to assess therapy effectiveness from changes inmicrobiome composition and/or functional features. Additionally oralternatively, survey-derived data from the user, pertaining toexperiences of the user while on the therapy (e.g., experienced sideeffects, personal assessment of improvement, behavioral modifications,symptom improvement, etc.) can be used to determine effectiveness of thetherapy in Block S180. For example, the method 100 can include receivinga post-therapy biological sample from the user; collecting asupplementary dataset from the user, where the supplementary datasetdescribes user adherence to a therapy (e.g., a determined and promotedtherapy) and/or other suitable user characteristics (e.g., behaviors,conditions, etc.); generating a post-therapy sleep-relatedcharacterization of the first user in relation to the sleep-relatedcondition based on the sleep-related characterization model and thepost-therapy biological sample; and promoting an updated therapy to theuser for the sleep-related condition based on the post-therapysleep-related characterization (e.g., based on a comparison between thepost-therapy sleep-related characterization and a pre-therapysleep-related characterization; etc.) and/or the user adherence to thetherapy (e.g., modifying the therapy based on positive or negativeresults for the user microbiome in relation to the sleep-relatedcondition; etc.). Additionally or alternatively, other suitable data(e.g., supplementary data describing user behavior associated with oneor more sleep-related conditions; supplementary data describing asleep-related condition such as observed symptoms; etc.) can be used indetermining a post-therapy characterization (e.g., degree of change frompre- to post-therapy in relation to the sleep-related condition; etc.),updated therapies (e.g., determining an updated therapy based oneffectiveness and/or adherence to the promoted therapy, etc.).

In an example, the method 100 can include collecting firstsleep-tracking data (e.g., at least one of first survey-derived data andfirst device data) and/or other suitable supplementary, where the firstsleep-tracking data is associated with sleep quality of the user;determining the sleep-related characterization for the user based on theuser microbiome features and the first sleep-tracking data; facilitatingtherapeutic intervention based on the sleep-related characterization;collecting a post-therapy biological sample from the user; collectingsecond sleep-tracking data (e.g., including at least one of secondsurvey-derived data and second device data; etc.) and/or other suitablesupplementary data, where the second sleep-tracking data is associatedwith the sleep quality of the user; and determining a post-therapysleep-related characterization for the user for the sleep-relatedcondition based on the second sleep-tracking data and post-therapymicrobiome features associated with the post-therapy biological sample.In the example, the method 100 can include facilitating therapeuticintervention in relation to an updated therapy (e.g., a modification ofthe therapy; a different therapy; etc.) for the user for improving thesleep-related condition, based on the post-therapy sleep-relatedcharacterization, such as where the updated therapy can include at leastone of a consumable, a device-related therapy, a surgical operation, apsychological-associated therapy, a behavior modification therapy, andan environmental factor modification therapy. In the example determiningthe post-therapy sleep-related characterization can include determininga comparison between microbiome characteristics of the user andreference microbiome characteristics corresponding to a user subgroupsharing at least one of a behavior and an environmental factor (and/orother suitable characteristic) associated with the sleep-relatedcondition, based on the post-therapy microbiome features, and wherefacilitating therapeutic intervention in relation to the updated therapycan include presenting the comparison to the user for facilitating atleast one of the behavior modification therapy and the environmentalfactor modification therapy and/or other suitable therapies. However,Block S180 can be performed in relation to additional biologicalsamples, additional supplementary data, and/or other suitable additionaldata in any suitable manner.

Therapy effectiveness, processing of additional biological samples(e.g., to determine additional sleep-related characterizations,therapies, etc.), and/or other suitable aspects associated withcontinued biological sample collection, processing, and analysis inrelation to sleep-related conditions can be performed at any suitabletime and frequency for generating, updating, and/or otherwise processingmodels (e.g., characterization models, therapy models, etc.), and/or forany other suitable purpose (e.g., as inputs associated with otherportions of the method 100). However, Block S180 can be performed in anysuitable manner.

The method 100 can, however, include any other suitable blocks or stepsconfigured to facilitate reception of biological samples from subjects,processing of biological samples from subjects, analyzing data derivedfrom biological samples, and generating models that can be used toprovide customized diagnostics and/or probiotic-based therapeuticsaccording to specific microbiome compositions and/or functional featuresof subjects.

Embodiments of the system 200 and/or method 100 can include everycombination and permutation of the various system components and thevarious method processes, including any variants (e.g., embodiments,variations, examples, specific examples, figures, etc.), where portionsof the method 100 and/or processes described herein can be performedasynchronously (e.g., sequentially), concurrently (e.g., in parallel),or in any other suitable order by and/or using one or more instances,elements, components of, and/or other aspects of the system 200 and/orother entities described herein.

Any of the variants described herein (e.g., embodiments, variations,examples, specific examples, figures, etc.) and/or any portion of thevariants described herein can be additionally or alternatively combined,aggregated, excluded, used, and/or otherwise applied.

The system 200 and/or method 100 and/or variants thereof can be embodiedand/or implemented at least in part as a machine configured to receive acomputer-readable medium storing computer-readable instructions. Theinstructions are preferably executed by computer-executable componentspreferably integrated with the system. The computer-readable medium canbe stored on any suitable computer-readable media such as RAMs, ROMs,flash memory, EEPROMs, optical devices (CD or DVD), hard drives, floppydrives, or any suitable device. The computer-executable component ispreferably a general or application specific processor, but any suitablededicated hardware or hardware/firmware combination device canalternatively or additionally execute the instructions.

As a person skilled in the art will recognize from the previous detaileddescription and from the figures and claims, modifications and changescan be made to the system 200, method 100, and/or variants withoutdeparting from the scope defined in the following claims.

TABLE 1 Taxa associated with individuals with sleep-related condition ofbad sleep quality, where the first through fourth columns are a setcorresponding to each other, the fifth through eighth columns are a setcorresponding to each other, and the ninth through twelfth columns are aset corresponding to each other. Column header “s” corresponds to site(“g” corresponds to gut, “ge” corresponds to genitals”, “n” correspondsto nose, “s” corresponds to skin, “m” corresponds to mouth”); columnheader “n” corresponds to taxon name; column header “r” corresponds totaxon rank (“f” corresponds to family, “g” corresponds to genus, “s”corresponds to species, “p” corresponds to phylum, “c” corresponds toclass, “o” corresponds to order); column header “c” corresponds tocorrelation (“+” corresponds to correlation and/or other associationwith control group individuals (good sleep quality); “−” corresponds tocorrelation and/or other association with condition group individuals(bad sleep quality)). s n r c s n r c s n r c g Bacteroidaceae f + gAnaerobacter g − n Sphingomonas s − sp. 540 g Bacteroides g + gCryobacterium g + n Corynebacterium s − epidermidicanis g Bacteroides s− g Enterococcus s − n Mesorhizobium s + thetaiotaomicron raffinosus sp.mat916 g Bacteroides s + g Helicobacteraceae f + n Actinomyces sp. s −uniformis ICM58 g Bacteroides s − g Elusimicrobia p + n Megasphaera sp.s − vulgatus BV3C16-1 g Roseburia g + g Desulfovibrio sp. s − nSphingobium sp. s − UNSW3caefatS LC341 g Faecalibacterium s − gPseudomonas s − n Anaerococcus sp. s − prausnitzii monteilii PH9 gDesulfovibrio g + g Bifidobacterium s + n Leptotrichiaceae f + merycicumg Desulfovibrio sp. s − g Bifidobacterium s − n Faecalibacterium s +pullorum sp. canine oral taxon 147 g Bacteroidetes p + gLeuconostocaceae f + n Murdochiella g + g Proteobacteria p + gAnaerovibrio g − n Lachnoanaerobaculum g − g Firmicutes p − gAnaerosinus s − n Streptococcus sp. s + glycerini GMD6S g Sarcina g − gAeromonadaceae f + n Varibaculum sp. s + CCUG 45114 g Streptococcaceaef + g Papillibacter g − n Dermabacter sp. s + HFH0086 g Streptococcusg + g Coprobacillus g − n Propionibacterium s − sp. KPL2005 gClostridium g + g Anaerostipes s + n Stomatobaculum g + caccae gActinobacteria c + g Parasporobacterium s − n Actinomyces sp. s −paucivorans S4-C9 g Lachnospira g − g Bifidobacterium s − n Atopobiumsp. s + sp. 65947 S3PFAA1-4 g Lachnospira s − g Campylobacter s + nAtopobium sp. s − pectinoschiza faecalis S4-A11a g Betaproteobacteria c− g Oscillospira s + n Gardnerella sp. s + guilliermondii S3PF20 gDeltaproteobacteria c + g Fusobacterium s + n Prevotella sp. S4- s +equinum 10 g Asaccharospora s − g Aeromonadales o − n Corynebacterium s− irregularis sp. jw37 g Clostridiaceae f − g Bacillus sp. HC15 s + nStreptococcus sp. s − 2011_Oral_MS_A3 g Phascolarctobacterium g − gWeissella cibaria s − n Veillonella sp. s − 2011_Oral_VSA_D3 gPhascolarctobacterium s + g Brachyspiraceae f + n Alloprevotella g −faecium g Lactobacillaceae f + g Collinsella s − n Dialister sp. s −intestinalis S7MSR5 g Dorea s − g Anaerosinus g − n Stenotrophomonas s +formicigenerans sp. N017 g Sutterella g − g Dysgonomonas g + nBradyrhizobium s + sp. CCBAU 53380 g Pseudobutyrivibrio g − gBifidobacterium s − n Anaerococcus sp. s − scardovii S8 87-3 gBacteroides s + g Enterococcus s − n Anaerococcus sp. s + caccae pallensS8 F2 g Verrucomicrobiales o − g Leuconostoc inhae s + n Finegoldia sp.S9 s + AA1-5 g Holdemania g + g Blautia schinkii s − n Murdochiella sp.s + S9 PR-10 g Holdemania s + g Acholeplasmatales o + n Peptoniphilussp. s − filiformis S9 PR-13 g Fibrobacteres p − g Eubacteriaceae f − nCorynebacterium s − sp. 713182/2012 g Verrucomicrobia p − gThermoanaerobacteraceae f + n Ralstonia sp. A52 s − g Burkholderiales o− g Planococcaceae f + n Staphylococcus s − sp. 3348O2 gCoriobacteriaceae f − g Gelria g + n Senegalimassilia g + g Eggerthellag + g Sedimentibacter g + n Peptoniphilus sp. s + DNF00840 gCoriobacteriia c − g Anaerofustis s + n Romboutsia g + stercorihominis gCoriobacteriales o − g Corynebacterium s + n Veillonella s + ciconiaeseminalis g Bacteroides s + g Eggerthella s − n Terrisporobacter g −acidifaciens sinensis g Blautia luti s − g Slackia faecicanis s − nPeptoniphilaceae f − g Bacilli c + g Acetanaerobacterium g − nTissierellia c − g Bacteroides sp. s + g Anaerosporobacter s − nTissierellales o − AR20 mobilis g Bacteroides sp. s + g Anaerofustis g +n Veillonellales o + AR29 g Collinsella g − g Lactobacillus s + nSelenomonadaceae f kefiranofaciens g Oscillospira g + g Veillonella sp.ADV s + n Spirochaetales o − 269.01 g Erysipelotrichaceae f + gCatabacter g − n Deinococcus g + g Roseburia s + g Catabacter s + nLactococcus g − intestinalis hongkongensis g Bacteroidales o + gPseudoclavibacter s + n Deinococcaceae f + bifida g Rikenellaceae f + gBacteroides sp. s + n Spirochaetes p − Smarlab 3301643 g Shuttleworthiag + g Anaerolineaceae f + n Spirochaetia c − g Clostridia c − gAnaerolineales o + n Campylobacter s + showae g Clostridiales o − gProteiniphilum g + n Comamonas g − g Lachnospiraceae f − g Streptococcussp. s − n Neisseria s S16-11 flavescens g Peptostreptococcaceae f + gBacteroides sp. s − n Neisseria canis s + WH302 g Lactobacillales o + gBacteroides sp. s − n Eikenella s + 4072 corrodens g Dorea g − gAlistipes s − n Aggregatibacter s − onderdonkii aphrophilus gDesulfovibrionaceae f + g Mitsuokella sp. s + n Aggregatibacter s −TM-10 segnis g Bacteroidia c + g Oscillibacter s − n Rodentibacter s +valericigenes pneumotropicus g Actinobacteria p + g Bifidobacterium s +n Cardiobacteriaceae f + tsurumiense g Verrucomicrobiae c − gMegasphaera sp. s − n Selenomonas g − TrE9262 g Verrucomicrobiaceae f −g Anaerococcus sp. s + n Capnocytophaga g − gpac137 g Fibrobacteria c −g Lactococcus sp. D2 s − n Capnocytophaga s − gingivalis gFibrobacteraceae f − g Weissella sp. H1a s − n Capnocytophaga s −ochracea g Anaerostipes g − g Barnesiella s + n Capnocytophaga s −viscericola sputigena g Desulfovibrionales o + g Pediococcus sp. s − nCyanobacteria p − MFC1 g Oscillospiraceae f + g Cronobacter s + nStreptococcus s + dublinensis mutans g Faecalibacterium g − gCronobacter s + n Atopobium rimae s + turicensis g Fibrobacterales o − gElusimicrobium g + n Lactobacillus s + paracasei g Alistipes g − gCatabacteriaceae f − n Actinomyces s − viscosus g Akkermansia g − gCellulosilyticum s + n Bifidobacterium s + ruminicola adolescentis gAkkermansia s − g Bacteroides sp. s + n Pseudopropionibacterium s +muciniphila CB57 propionicum g Hespellia g + g Paraprevotella s + nCardiobacterium g + xylaniphila g Anaerotruncus g + g Bacteroides sp.s + n Cardiobacterium s + 3_1_23 hominis g Marvinbryantia g − gParabacteroides sp. s + n Tannerella s − 20_3 forsythia gSubdoligranulum g − g Nosocomiicoccus g − n Porphyromonas s −endodontalis g Flavonifractor s + g Nosocomiicoccus s − n Prevotella s −plautii ampullae intermedia g Bacteroides s − g Megamonas s − nPrevotella s + finegoldii rupellensis nigrescens g Roseburia s + gButyricicoccus s + n Prevotella oris s − inulinivorans pullicaecorum gBlautia wexlerae s − g Cloacibacterium s + n Prevotella s − rupenseoulorum g Lactonifactor g + g Fusobacterium sp. s + n Dolosigranulum g +DJF_B100 g Moryella g + g Mitsuokella sp. s + n Dolosigranulum s −DJF_RR21 pigrum g Adlercreutzia s − g Roseburia sp. s − n Acetitomaculumg − equolifaciens DJF_RR73 g Adlercreutzia g − g Gracilibacteraceae f +n Terrisporobacter s − glycolicus g Erysipelotrichia c + g Pantoea sp. s− n Leptotrichia s − CWB304 buccalis g Erysipelotrichales o + gButyricimonas s − n Porphyromonas s − synergistica catoniae gRuminococcaceae f − g Selenomonas sp. s + n Corynebacterium s − Ycbo8matruchotii g Clostridiales f f + g Asaccharobacter g + n Catonella g −XIII. Incertae Sedis g Blautia g − g Coprobacillus sp. s − n Catonellamorbi s − D6 g Roseburia sp. s + g Bifidobacterium s + n Filifactor g −11SE39 sp. 138 g Bacteroides sp. s − g Bacteroides sp. S- s + nActinomyces s − D22 17 georgiae g Alistipes sp. s + g Butyricicoccus g +n Actinomyces s + RMA 9912 gerencseriae g Blautia faecis s − gBacteroides sp. s − n Acidobacteria p + D20 g Selenomonadales o + gHydrogenoanaerobacterium g + n Prevotella pallens s g Acidaminococcaceaef − g Bacteroides fluxus s − n Corynebacterium s + durum g Negativicutesc + g Bacteroides s − n Alloprevotella s − oleiciplenus tannerae gEggerthella sp. s + g Slackia piriformis s − n Centipeda g − HGA1 gFlavonifractor g + g Collinsella s − n Centipeda s − tanakaeiperiodontii g Sutterellaceae f − g Christensenella s + n Eggerthellalenta s + minuta g Anaerostipes sp. s − g Succinatimonas s + nCryptobacterium g + 5_1_63FAA hippei g Fusicatenibacter s − gDesulfovibrio sp. s − n Cryptobacterium s + saccharivorans G11 curtum gIntestinimonas g + g Pyramidobacter s − n Rothia sp. CCUG s − piscolens25688 g Fusicatenibacter g + g Lactobacillus sp. s + n Mogibacterium s −S16 pumilum g Candidatus g + g Elusimicrobia c + n Pseudoflavonifractors + Soleaferrea capillosus g Peptoclostridium g + g Elusimicrobiales o +n Sphingobacteriia c + g Asaccharospora g − g Elusimicrobiaceae f + nCardiobacteriales o + g Erysipelatoclostridium g − g Bacteroides sp.TP-5 s − n Filifactor alocis s − g Flavobacterium g − g Anaerostipes s −n Turicibacter s + butyraticus sanguinis g Enterobacteriaceae f + gAeromonas sp. B11 s + n Leptotrichia s + wadei g Kluyvera g + gParabacteroides sp. s − n Leptotrichia s + D25 shahii g Pasteurellaceaef + g Desulfovibrio sp. s + n Rothia aeria s + 6_1_46AFAA g Haemophilusg + g Enterorhabdus s − n Victivallis g − caecimuris g Haemophilus s + gBacteroides faecis s − n Turicibacter g + parainfluenzae g Bacteroidess + g Succinatimonas g + n Tannerella g − fragilis g Parabacteroides s +g Blautia sp. Ser5 s − n Sphingobacteriales o + distasonis gButyrivibrio g − g Eubacterium sp. s + n Chloroflexi p − SA11 gPorphyromonas g + g Bacteroides s − n Acidobacteriia c − rodentium gPrevotella g + g Bacteroides s + n Acidobacteriales o − chinchillae gGammaproteobacteria c + g Cellulosilyticum g + n Selenomonas s −genomosp. P5 g Streptococcus s + g Caldicoprobacter g + n Victivallaceaef − thermophilus g Erysipelatoclostridium s + g Enterobacter sp. s − nLentisphaerae p − ramosum UDC345 g Lactobacillus g + g Lactobacillus sp.s + n Victivallales o − TAB-26 g Corynebacteriaceae f + gBifidobacterium s + n Capnocytophaga s − biavatii genosp. AHN8471 gBifidobacterium g − g Megasphaera sp. s − n Capnocytophaga s + BS-4 sp.AHN10044 g Corynebacterium g + g Pseudomonas sp. s + n Capnocytophagas + a101-18-2 sp. AHN9756 g Corynebacterium s + g Rothia sp. RV13 s + nAggregatibacter g − sp. g Actinomycetales o + g Klebsiella sp. s − nPrevotella s − SOR89 nanceiensis g Methanobacteriales o + g Lactococcussp. s + n Actinomyces s + MH5-2 massiliensis g Methanobacteriaceae f + gCampylobacter sp. s + n Lachnoanaerobaculum s + 0402694-C0078 saburreumg Methanobrevibacter g + g Lactobacillus sp. s − n Bacteroides sp. s −C4I2 2_2_4 g Methanobrevibacter s + g Leuconostoc sp. s + n Olsenellasp. s + smithii C7I4 F0004 g Gardnerella g + g Christensenellaceae f + nLeptotrichia s − hongkongensis g Gardnerella s + g Christensenella g + nChitinophagaceae f + vaginalis g Peptococcus g + g Bacteroides sp. s − nBifidobacterium s + dnLKVg stercoris g Alistipes s − g Parabacteroidessp. s − n Neisseria s + putredinis dnLKV8 shayeganii g Odoribacter s + gBacteroides sp. s + n Rhizobium sp. s + splanchnicus HPS0048 T45 gAlphaproteobacteria c + g Anaerovibrio sp. s + n Fretibacterium s − 656fastidiosum g Euryarchaeota p + g Anaerovibrio sp. s − n Oribacteriumsp. s + 765 oral taxon 078 g Bifidobacteriaceae f − g Acidaminococcus s− n Leptotrichia sp. s + sp. BV3L6 oral taxon 225 g Mollicutes c + gFinegoldia sp. s + n Alloprevotella s + BV3C29 rava g Bilophila g − gLactococcus sp. s − n Prevotella sp. s − STM1 WAL 2039G g Sutterella s +g Herbaspirillum sp. s + n Neisseria s + wadsworthensis YR522 skkuensisg Rhodospirillaceae f + g Phascolarctobacterium s − n Capnocytophaga s +sp. canine oral sp. oral taxon 329 taxon 149 g Butyrivibrio s − gPeptococcus sp. s + n Capnocytophaga s + crossotus canine oral taxon sp.oral taxon 338 334 g Parabacteroides s − g Proteiniclasticum g − nActinomyces sp. s − merdae oral taxon 448 g Bacteroides s + gBacteroides sp. s − n Streptococcus sp. s + stercoris 14(A) oral taxonG63 g Flavobacteriaceae f − g Turicibacter sp. s + n Tannerella sp. s −LA62 oral taxon HOT- 286 g Kluyvera s + g Cloacibacillus s + nCapnocytophaga s − georgiana porcorum sp. CM59 g Collinsella s + gPropionibacterium s + n Fusobacterium s + aerofaciens sp. KPL1844 sp.CM22 g Slackia g + g Butyricimonas sp. s + n Oribacterium sp. s − 180-3CM12 g Bifidobacteriales o − g Butyricimonas sp. s − n Brevundimonas s +214-4 sp. FXJ8.080 g Corynebacteriales o + g Olsenella sp. 1183 s + nMoraxella sp. s + WB19-16 g Dorea s − g Anaerostipes s + n Pseudomonassp. s − longicatena rhamnosivorans KB23 g Enterobacterales o + gButyricimonas sp. s − n Lysinibacillus sp. s + GD2 SJ2SN2 gFlavobacteriia c − g Streptococcus sp. s + n Pseudoflavonifractor g +2011_Ileo_MS_A10 g Pasteurellales o + g Streptococcus sp. s + nNeisseria oralis s − 2011_Oral_MS_D12 g Peptoniphilus g + g Veillonellasp. s − n Actinomyces sp. s − 2011_Oral_VSA_D12 ph3 g Anaerococcus g + gSutterella sp. 252 s − n Rothia sp. THG- s − N7 g Thalassospira g + gRoseburia sp. 499 s − n Lentisphaeria c − g Porphyromonadaceae f + gAnaerostipes sp. s − n Tessaracoccus s + 992a lapidicaptus gPrevotellaceae f + g Rahnella sp. s + n Fretibacterium g − FB303 gMethanobacteria c + g Citrobacter sp. s − n Dielma g − HD4.9 gPeptococcaceae f + g Megasphaera sp. s + n Alistipes inops s + DNF00872g Flavobacteriales o − g Megasphaera sp. s − n Pseudomonas s − DNF00912aeruginosa g Rhodospirillales o + g Megasphaera sp. s − n Moraxella s −S6-MB2 catarrhalis g Subdoligranulum s − g Candidatus g + n Enterobacters + variabile Methanomethylophilus cloacae g Bifidobacterium s + gRahnella sp. BSP18 s + n Klebsiella oxytoca s + longum g Peptoniphiluss + g Bacteroides s − n Aeromonas g − sp. 2002- caecigallinarum 2300004g Sutterella s − g Bacteroides sp. s − n Rhodobacter g + stercoricanisC13EG172 g Odoribacter g + g Pediococcus sp. s − n Oscillatoriales o −3107O2 g Bacteroides s + g Streptococcus sp. s + n Leuconostoc g +salyersiae 3244O2 g Parabacteroides s + g Eggerthellales o − nLeuconostoc s + goldsteinii mesenteroides g Bacteroides sp. s + gEggerthellaceae f − n Leuconostoc s − XB12B lactis g Parabacteroides g −g Acidaminococcales o − n Leuconostoc s + carnosum g Barnesiella g − gOdoribacteraceae f + n Pediococcus g + g Howardella g + g Clostridioidesg − n Weissella confusa s − g Alistipes sp. s + g Barnesiellaceae f + nLactobacillus s + EBA6-25cl2 delbrueckii g Oscillibacter g + gKlebsiella s + n Carnobacterium g pneumoniae g Alistipes sp. s + gAeromonas s + n Lactobacillus s + NML05A004 salmonicida curvatus gBarnesiella s + g Streptococcus s − n Bacteroides s + intestinihominissobrinus ovatus g Parasutterella s + g Nocardioides g − n Rahnella g −excrementihominis g Porphyromonas s − g Solanaceae f + n Weissella g −bennonis g Clostridiales f f + g Acidovorax g + n Weissella s − XI.Incertae hellenica Sedis g Tenericutes p + g Variovorax g + n Raoultellas − ornithinolytica g Butyricimonas g − g Pseudomonas s + nRhodocyclaceae f + citronellolis g Parasutterella g + g Nocardioidaceaef − n Pseudomonas s − monteilii g Bifidobacterium s − g Cytophagaceaef + n Leuconostocaceae f + kashiwanohense g Anaerosporobacter g + gMassilia g − n Aeromonadaceae f − g Corynebacterium s + g Staphylococcuss − n Fusobacterium s + canis equorum equinum Bilophila sp. s − gCytophagia c + n Aeromonadales o − 4_1_30 g Blautia stercoris s + gCytophagales o + n Raoultella g − g Alistipes sp. s − g Aerococcus sp.s + n Planococcaceae f − HGB5 B43(2010) g Bacteroides sp. s + gDefluviimonas g − n Corynebacterium s + SLC1-38 atypicum gTerrisporobacter g − g Yersinia g − n Acidobacteriaceae f − gIntestinibacter g + g Yersinia s − n Rhodocyclales o + enterocolitica gLactococcus g − g Bacillus cereus s − n Pseudoclavibacter s + bifida gBacteroides sp. s + g Planomicrobium g + n Paucibacter g + XB44A gPhascolarctobacterium s − g Rothia sp. BBH4 s − n Cloacibacterium s −succinatutens rupense g Asteroleplasma g − g Clostridiales f XII. f + nAcinetobacter sp. s + Incertae Sedis 423D g Acetitomaculum g + gArthrospira g + n Pantoea gaviniae s − g Terrisporobacter s − gVariovorax sp. s + n Bacillus sp. DHT- s − glycolicus TA_DQ 33 gBifidobacterium s + g Streptococcus s − n Lactobacillus sp. s + sp.australis TAB-26 g Turicibacter s + g Spirochaetaceae f + n Pseudomonassp. s − sanguinis a101-18-2 g Victivallis g + g Providencia g − nLactococcus sp. s − MH5-2 g Anaeroplasmatales o + g Salmonella g + nPseudomonas sp. s − CBMAI 1177 g Anaeroplasmataceae f + g Leuconostocs + n Propionibacterium s + gelidum sp. KPL1844 g Turicibacter g + gStreptococcus suis s − n Streptococcus sp. s + 2011_Ileo_MS_A10 RVictivallaceae f + g Enterococcus s − n Rahnella sp. s − faecium BSP18 RLentisphaerae p + g Enterococcus s + n Myxococcales o + gallinarum RVictivallales o + g Lactococcus s + n Lysobacter g − raffinolactis gBacteroides s + g Bacillus subtilis s + n Caulobacter g nordii gHowardella s + g Salmonella s + n Planctomycetales o + ureilyticaenterica g Bacteroides sp. s − g Peptoniphilus s + n Planctomycetaceaef + 2_2_4 indolicus g Gordonibacter s + g Lactobacillus s − nBrevundimonas s − pamelaeae pontis diminuta g Bacteroides sp. s − gCorynebacterium s + n Xanthomonas s + DJF_B097 vitaeruminis campestris gButyricimonas s − g Helcococcus kunzii s + n Acetobacteraceae f + virosag Anaerotruncus s + g Desulfovibrio s + n Acinetobacter s − sp. NML070203 fairfieldensis baumannii g Robinsoniella g + g Brachyspira s + nMoraxella s + pilosicoli nonliquefaciens g Bifidobacterium s − gDesulfovibrio s − n Psychrobacter g − stercoris intestinalis gGordonibacter g + g Deinococcus s + n Klebsiella s − geothermalispneumoniae g Caldicoprobacteraceae f − g Denitrobacterium g − nAeromonas s + salmonicida g Lentisphaeria c + g Mannheimia s + nAlloiococcus g + varigena g Dielma g + g Dysgonomonas s − n Alloiococcuss + gadei otitis g Alistipes inops s − g Allobaculum g + n Nocardia g +g Alistipes s + g Allobaculum s + n Nocardioides g − massiliensisstercoricanis g Alistipes s − g Cetobacterium g + n Pseudonocardia g −indistinctus g Lactococcus sp. s − g Cetobacterium s + n Streptomyces g− MH5-2 somerae g Sutterella sp. s + g Paraeggerthella s + nAeromicrobium g + 252 hongkongensis ge Bacteroidaceae f − gDesulfovibrio sp. s + n Streptomycetaceae f − LNB2 ge Bacteroides g − gAnaerostipes sp. s − n Pseudonocardiaceae f − AIP 183.04 ge Bacteroidess − g Denitratisoma g − n Brochothrix g + thetaiotaomicron geBacteroides s − g Bacteroides s − n Solanaceae f + uniformis barnesiaege Bacteroides s + g Bacteroides s + n Basidiomycota p + vulgatussalanitronis ge Roseburia g + g Sphaerochaeta g + n Acidovorax g + geFaecalibacterium s − g Puniceicoccaceae f + n Sphingobacterium g +prausnitzii ge Acidaminococcus g − g Pediococcus s − n Staphylococcuss + argentinicus saprophyticus ge Herbaspirillum g − g Slackia s + nMicrolunatus g + equolifaciens ge Herbaspirillum s + g Herbaspirillumsp. s + n Cutibacterium s − seropedicae AU13035 granulosum geBacteroidetes p − g Vagococcus teuberi s − n Microbacterium s − lacticumge Proteobacteria p − g Brachyspira sp. s + n Exiguobacterium g + HIS5ge Firmicutes p + g Parabacteroides sp. s + n Variovorax g + D13 geSarcina g + g Enterorhabdus s + n Dietzia g + mucosicola geStreptococcaceae f − g Paraeggerthella g + n Blastococcus g − geStreptococcus g − g Lactobacillus sp. s + n Blastococcus s − oral taxon052 aggregatus ge Clostridium g + g Bacteroides s + n Chlamydiales o +sartorii ge Actinobacteria c − g Lactococcus sp. s + n Pseudomonas s +TP1MJ citronellolis ge Lachnospira g + g Lactococcus sp. s + nMalassezia g + TP2MJ ge Lachnospira s + g Bacteroides sp. D-2 s − nDermacoccus g + pectinoschiza ge Betaproteobacteria c − g Dysgonomonass + n Brevundimonas s + oryzarvi subvibrioides ge Asaccharospora s + gLactobacillus faecis s − n Malassezia s − irregularis restricta geClostridiaceae f + g Parabacteroides s + n Sphingobacteriaceae f +chinchillae ge Lactobacillaceae f + g Lactobacillus sp. s + nRubrobacteria c − Mbohs2t7 ge Sutterella g − g Lactobacillus sp. s − nPseudonocardiales o − Thmro2 ge Pseudobutyrivibrio g + g Bacillus sp.PrMC7 s − n Streptomycetales o − ge Verrucomicrobiales o + gFusobacterium sp. s + n Frankiales o − CM1 ge Verrucomicrobia p + gLactobacillus sp. s − n Nocardioidaceae f − C4I1 ge Oxalobacteraceae f −g Bacillus sp. N-16 s − n Intrasporangiaceae f + ge Burkholderiales o −g Methanosphaera s + n Dietziaceae f + cuniculi ge Coriobacteriaceae f +g Eggerthella sp. E1 s − n Geodermatophila f − ceae ge Coriobacteriiac + g Anaeroglobus sp. s + n Nakamurellaceae f S4-A15 geCoriobacteriales o + g Murdochiella sp. s − n Facklamia s + S5-A16tabacinasalis ge Bacteroides s + g Oscillibacter sp. 1-3 s − nCytophagaceae f − acidifaciens ge Bacilli c + g Bacteroides sp. s + nHymenobacter g + 2011_Ileo_VSA_D7 ge Bacteroides sp. s − gCorynebacterium s − n Acinetobacter s − AR20 sp. full20 ursingii geBacteroides sp. s − g Oligosphaeria c − n Dyadobacter g + AR29 geCollinsella g + g Oligosphaerales o − n Corynebacterium s + felinum geOscillospira g − g Parabacteroides sp. s + n Dermacoccaceae f + J1502 geErysipelotrichaceae f − g Enterobacter sp. s − n Massilia g + SPSA1 geRoseburia s + g Anaerobacterium g − n Malasseziales o + intestinalis geBacteroidales o − g Ruminiclostridium g + n Aurantimonas g − geRikenellaceae f − g Sporomusaceae f − n Sphingomonas s + aerolata geShuttleworthia g + g Erwiniaceae f + n Listeriaceae f + ge Clostridiac + m Bacteroidaceae f + n Dermacoccus sp. s + Ellin183 ge Clostridialeso + m Bacteroides g + n Dermacoccus sp. s + Ellin185 ge Lachnospiraceaef + m Bacteroides s − n Thermomicrobia c − uniformis gePeptostreptococcaceae f − m Bacteroides s + n Planctomycetes p +vulgatus ge Lactobacillales o + m Roseburia g + n Planctomycetia c + geBacteroidia c − m Faecalibacterium s + n Chlamydiae p + prausnitzii geActinobacteria p − m Desulfovibrio g + n Chlamydiia c + geVerrucomicrobiae c + m Herbaspirillum g + n Solirubrobacter g − geVerrucomicrobiaceae f + m Herbaspirillum s + n Brachybacterium s −seropedicae muris ge Oscillospiraceae f − m Bacteroidetes p + nGemmatimonadales o + ge Faecalibacterium g − m Proteobacteria p − nGemmatimonadaceae f + ge Alistipes g − m Firmicutes p + n Kocuria marinas − ge Akkermansia g + m Sarcina g + n Jeotgalicoccus g + ge Akkermansias + m Streptococcaceae f − n Staphylococcus s − muciniphila equorum geAnaerotruncus g − m Streptococcus g − n Aurantimonadaceae f − geMarvinbryantia g + m Clostridium g + n Rubellimicrobium g − geFlavonifractor s − m Actinobacteria c − n Burkholderia sp. s + plautiiCBPB-HIM ge Bacteroides s − m Lachnospira g + n Sphingomonas s +finegoldii oligophenolica ge Moryella g + m Lachnospira s + nSolirubrobacteraceae f − pectinoschiza ge Adlercreutzia s + mBetaproteobacteria c − n Trueperaceae f − equolifaciens ge Adlercreutziag + m Deltaproteobacteria c + n Truepera g − ge Erysipelotrichia c − mAsaccharospora s + n Methylobacterium s + irregularis adhaesivum geErysipelotrichales o − m Veillonellaceae f − n Patulibacteraceae f + geRuminococcaceae f + m Clostridiaceae f + n Actinomycetospora g + geClostridiales f f − m Phascolarctobacterium g + n Acinetobacter sp. s −XIII. Incertae RBE2CD-76 Sedis ge Acidaminococcus s − mPhascolarctobacterium s + n Exobasidiomycetes c + sp. D21 faecium geBlautia g + m Lactobacillaceae f − n Dermacoccus sp. s + SST-20 geRoseburia sp. s + m Dorea s + n Methylobacterium s + 11SE39formicigenerans sp. Gh-143 ge Alistipes sp. s + m Sutterella g + nMoraxella sp. s + RMA 9912 BBN2P-02d ge Blautia sp. Ser8 s − mPseudobutyrivibrio g + n Solirubrobacterales o − ge Blautia faecis s + mBacteroides caccae s + n Acinetobacter s + kyonggiensis ge Negativicutesc + m Verrucomicrobiales o + n Acinetobacter sp. s + T133 ge Eggerthellasp. s + m Holdemania g n Iamiaceae f + HGA1 ge Flavonifractor g − mHoldemania s n Brevundimonas s − filiformis sp. JW23.4a geSutterellaceae f − m Verrucomicrobia p + n Malasseziaceae f + geIntestinimonas g − m Oxalobacteraceae f + n Pseudomonas sp. s + PcFRB119ge Peptoclostridium g + m Burkholderiales o + n Microbacterium s + sp.PcRB024 ge Asaccharospora g + m Coriobacteriaceae f + n Cytophagia c −ge Erysipelatoclostridium g − m Coriobacteriia c + n Cytophagales o − geCampylobacter g + m Coriobacteriales o + n Novosphingobium s − sp.THA_AIK7 ge Campylobacter s − m Bacteroides s + n Staphylococcus s +concisus acidifaciens sp. C-D-MA2 ge Campylobacter s + m Blautia lutis + n Aerocoecus sp. s + rectus B43(2010) ge Achromobacter g + m Bacillic + n Pseudomonas sp. s − PKG89 ge Flavobacterium g + m Bacteroides sp.s + n Acinetobacter sp. s + AR20 C049 ge Pseudomonas g − m Bacteroidessp. s + n Acinetobacter sp. s − AR29 WB22-23 ge Ralstonia s − mCollinsella g + n Micrococcus sp. s − pickettii WB18-01 ge Rhizobiales o− m Oscillospira g + n Sphingomonas s + sp. PDD-26b-16 ge Rhizobium g −m Erysipelotrichaceae f + n Ferruginibacter g + ge Methylobacterium g +m Roseburia s − n Amnibacterium g + intestinalis ge Moraxellaceae f + mBacteroidales o + n Aureimonas s − phyllosphaerae ge Acinetobacter g − mRikenellaceae f + n Stenotrophomonas s + sp. I_63- LFP1A9B1 ge Moraxellag + m Shuttleworthia g − n Blastocatella s + fastidiosa ge Neisseriaceaef − m Clostridia c + n Acinetobacter sp. s − HD5.2 ge Neisseria g + mClostridiales o + n Ochrobactrum s + sp. FPY8 ge Neisseria s − mLachnospiraceae f + n Chryseobacterium s + elongata sp. R064 geAlcaligenaceae f − m Peptostreptococcaceae f − n Rhizobium sp. s 10II geOchrobactrum g − m Lactobacillales o − n Brevibacterium s − sp.MBTD_CMFRI_Br02 ge Enterobacteriaceae f − m Dorea g + n Exiguobacteriums + sp. icr3 ge Citrobacter g − m Desulfovibrionaceae f + nMycobacterium s − sp. UNC410CL29Cvi84 ge Enterobacter g + m Bacteroidiac + n Phenylobacterium g + ge Kluyvera g − m Actinobacteria p − nPlanctomyces g − ge Proteus g + m Verrucomicrobiae c + n Pirellula g −ge Proteus mirabilis s − m Verrucomicrobiaceae f + n Thermus sp. s − geSerratia g − m Anaerostipes g + n Acidiphilium g + ge Haemophilus s + mDesulfovibrionales o + n Pantoea s + influenzae agglomerans geHaemophilus s + m Oscillospiraceae f + n Yersinia g + parainfluenzae geBacteroides s + m Faecalibacterium g + n Yersinia s + fragilisenterocolitica ge Parabacteroides s − m Alistipes g + n Sphingobacteriums + distasonis mizutaii ge Campylobacter s + m Akkermansia g + nDermacoccus s + gracilis nishinomiyaensis ge Campylobacter s + mHespellia g − n Planococcus g − ureolyticus ge Porphyromonas g − mAnaerotruncus g + n Bacillus cereus s − ge Prevotella g + mMarvinbryantia g − n Sporosarcina g − ge Fusobacterium g + mSubdoligranulum g + n Cellulomonas g − ge Fusobacterium s + mFlavonifractor s − n Sphingomonas s + nucleatum plautii paucimobilis geFusobacterium s + m Bacteroides s + n Alicyclobacillus g − periodonticumfinegoldii ge Megasphaera g + m Roseburia s + n Porphyromonas s −inulinivorans cangingivalis ge Weeksella g + m Blautia wexlerae s + nPorphyromonas s + canoris ge Weeksella virosa s + m Lactonifactor g − nKocuria kristinae s − ge Chromatiaceae f + m Moryella g + nPedomicrobium g − ge Rhodopseudomonas g − m Adlercreutzia s − nBibersteinia s − equolifaciens trehalosi ge Gammaproteobacteria c − mAdlercreutzia g − n Pleurocapsales o + ge Peptostreptococcus g − mErysipelotrichia c + n Janibacter g + ge Peptostreptococcus s − mErysipelotrichales o + n Chroococcidiopsis g + anaerobius geMicrococcaceae f − m Ruminococcaceae f + n Kytococcus g + ge Micrococcusg + m Blautia g + n Empedobacter g − ge Micrococcus s + m Roseburia sp.s + n Rheinheimera g luteus 11SE39 ge Staphylococcus g + m Bacteroidessp. s + n Macrococcus g + D22 ge Staphylococcus s − m Alistipes sp. RMAs + n Luteimonas g + aureus 9912 ge Staphylococcus s − m Blautia faeciss − n Pedobacter g + epidermidis ge Staphylococcus s + m Selenomonadaleso − n Rubrobacterales o + simulans ge Deinococcus- p − mAcidaminococcaceae f + n Rubrobacteraceae f + Thermus ge Streptococcus s− m Negativicutes c − n Sphaerobacterales o − gordonii ge Streptococcuss − m Eggerthella sp. s n Streptosporangiales o + agalactiae HGA1 geStreptococcus s − m Streptococcus sp. s − n Modestobacter g −parasanguinis BS35a ge Streptococcus s − m Flavonifractor g + nModestobacter s − anginosus multiseptatus ge Streptococcus s − mSutterellaceae f − n Sphingomonas s + dysgalactiae aquatilis geEnterococcus g + m Anaerostipes sp. s + n Ochrobactrum s − 5_1_63FAAtritici ge Enterococcus s + m Fusicatenibacter s + n Ornithinimicrobiumg + faecalis saccharivorans ge Lactococcus s + m Blautia sp. YHC-4 s − nPlanomicrobium g + lactis ge Aerococcus g + m Intestinimonas g + nMicrovirga g − ge Aerococcus s − m Fusicatenibacter g + nAlicyclobacillaceae f − urinae ge Gemella g − m Eisenbergiella g − nAlbidovulum s − inexpectatum ge Atopobium g + m Eisenbergiella tayi s −n Ralstonia sp. s + CCUG 46389 ge Atopobium s + m Candidatus g nAlbidovulum g − minutum Soleaferrea ge Bacillales o − m Peptoclostridiumg − n Bdellovibrionales o ge Bacillus g − m Asaccharospora g + nPaucibacter s + toxinivorans ge Lysinibacillus s − mErysipelatoclostridium g + n Chthoniobacter g − sphaericus geLactobacillus g + m Campylobacter g − n Conchiformibius g − geLactobacillus s − m Campylobacter s + n Erythrobacteraceae f −acidophilus concisus ge Lactobacillus s − m Campylobacter s + nSphingomonas s + plantarum rectus dokdonensis ge Lactobacillus s + mAchromobacter g + n Staphylococcus s − gasseri sp. L10 ge Lactobacilluss − m Flavobacterium g − n Flavisolibacter g + reuteri ge Lactobacilluss m Pseudomonas g − n Aureimonas g − fermentum ge Lactobacillus s − mRhizobiales o − n Chryseobacterium s + vaginalis haifense geCorynebacteriaceae f − m Bradyrhizobium g − n Nocardioides s +mesophilus ge Actinomyces s − m Methylobacterium g − n Singulisphaerag + odontolyticus ge Arthrobacter g − m Moraxellaceae f + n Acidovoraxsp. s − LR05 ge Bifidobacterium g − m Acinetobacter g + n Mycobacteriums − sp. KNUC297 ge Bifidobacterium s − m Moraxella g − n Pseudomonas sp.s + bifidum KNUC378 ge Bifidobacterium s + m Neisseriaceae f − nNitrososphaera g + breve ge Bifidobacterium s + m Neisseria g − nBrevibacterium s + dentium pityocampae ge Brevibacterium g − m Neisseriamucosa s − n Sphingomonas s + sp. CS81 ge Corynebacterium g − mNeisseria elongata s − n Chryseobacterium s + sp. Y1D ge Corynebacteriums − m Neisseria macacae s − n Variovorax sp. s − diphtheriae IMER-B2-7ge Corynebacterium s − m Alcaligenaceae f + n Thaumarchaeota p − sp. gePropionibacterium g − m Enterobacteriaceae f + n Jeotgalicoccus s +aerolatus ge Cutibacterium s + m Enterobacter g + n Pseudorhodoferax g −acnes ge Mycobacteriaceae f + m Klebsiella g − n Burkholderia sp. s −S32 ge Mycobacterium g + m Kluyvera g − n Blastococcus sp. s + 0705C6-3ge Rhodococcus g − m Pasteurellaceae f − n Pseudomonas sp. s + PcFRB100ge Rhodococcus s − m Actinobacillus g − n Chryseobacterium s +erythropolis sp. IIL-Nv8 ge Actinomycetales o − m Haemophilus g − nBrevibacterium s + sp. A9C6 ge Actinomycetaceae f − m Haemophilus s − nAcinetobacter sp. s + influenzae C-S-PDA7 ge Mobiluncus g − mHaemophilus s − n Janibacter sp. s + parainfluenzae M3-5 ge Mobiluncus s− m Bacteroides fragilis s − n Blastococcus sp. s + curtisii FXJ6.383 geMobiluncus s − m Parabacteroides s − n Mesorhizobium s + mulierisdistasonis sp. RE 62 ge Mycoplasma g + m Campylobacter s − n Bacillussp. s − gracilis CBMAI 1158 ge Mycoplasma s + m Campylobacter s + nShewanella sp. s + hominis ureolyticus 8113 ge Ureaplasma g − mButyrivibrio g − n Kocuria sp. s + FXJ6.339 ge Ureaplasma s − mPorphyromonas g + n Acinetobacter sp. s − urealyticum STE geMethanobacteriales o − m Prevotella g − n Pseudomonas sp. s PDD-31b-4 geMethanobacteriaceae f − m Fusobacterium g − n Nitrososphaerales o + geMethanobrevibacter g − m Fusobacterium s − n Nitrososphaeraceae f +nucleatum ge Methanobrevibacter s − m Fusobacterium s + n Photobacteriums + smithii periodonticum sp. squidInt_04 ge Gardnerella g + mMegasphaera g + n Dermacoccus sp. s + D2.1 ge Gardnerella s − mGammaproteobacteria c − n Stenotrophomonas s − vaginalis sp. Z2-S2 gePeptococcus g − m Peptostreptococcus g − n Deinococcus s − antarcticusge Peptococcus s − m Finegoldia magna s + n Deinococcus sp. s − nigerUAC-77 ge Halomonas g − m Peptostreptococcus s − n Staphylococcus s −anaerobius sp. 3356O2 ge Globicatella g − m Micrococcaceae f − nVariovorax sp. s + MM43Nov ge Globicatella s − m Staphylococcus g + nJanibacter sp. s + sanguinis IARI-RP17 ge Sphingomonas g − mStaphylococcus s − n Rhodobacter s + epidermidis capsulatus gePhyllobacterium g + m Deinococcus- p − n Thermomonosporaceae f + Thermusge Bacteroides s − m Streptococcus s − n Pedomicrobium s − eggerthiigordonii ferrugineum ge Alistipes s + m Streptococcus s + n Thermomonasg − putredinis thermophilus ge Odoribacter s + m Streptococcus s − nAlkanindiges g − splanchnicus agalactiae ge Porphyromonas s + mStreptococcus s − n Aureimonas s − asaccharolytica parasanguinisaltamirensis ge Prevotella bivia s − m Enterococcus g + n Rhodococcussp. s + CO56 ge Prevotella s + m Lactococcus lactis s + n Pseudomonass + buccalis syringae ge Prevotella s − m Aerococcus g + n Acinetobacters − disiens calcoaceticus ge Cronobacter s − m Gemella g + n Neisserias + sakazakii meningitidis ge Alphaproteobacteria c − m Atopobium g − nPectobacterium s + carotovorum ge Halomonadaceae f − m Bacillales o + nRickettsiales o − ge Arcanobacterium g + m Bacillus g − n Fusobacteriums − russii ge Arcanobacterium s + m Lysinibacillus s − n Thiobacillus g− haemolyticum sphaericus ge Euryarchaeota p − m Clostridioides s − nBergeyella s − difficile zoohelcum ge Gemella s − mErysipelatoclostridium s − n Nitrosococcus g + morbillorum ramosum geRhizobium etli s − m Lactobacillus g − n Streptococcus s − pneumoniae geVeillonella g − m Lactobacillus s − n Aerococcus s − plantarum viridansge Veillonella s − m Lactobacillus s n Actinomyces s − parvula gasseriisraelii ge Epsilonproteobacteria c + m Lactobacillus s − nMycobacterium s − fermentum chelonae ge Bifidobacteriaceae f + mLactobacillus s + n Curtobacterium g salivarius ge Propionibacteriaceaef + m Lactobacillus s − n Halobacteriales o + vaginalis ge Mollicutesc + m Corynebacteriaceae f + n Halobacteriaceae f + ge Eggerthia s − mActinomyces g − n Chelatococcus g − catenaformis ge Helcococcus g − mActinomyces s + n Brachymonas g + odontolyticus ge Leptotrichia g + mBifidobacterium s + n Microlunatus s + bifidum phosphovorus ge Rothia g− m Bifidobacterium s − n Acinetobacter s + dentium haemolyticus geActinomyces s − m Corynebacterium g + n Arthrospira g − neuii geCutibacterium s − m Corynebacterium s + n Rubrobacter g + avidum sp. gePropionimicrobium s − m Propionibacterium g + n Johnsonella s +lymphophilum ignava ge Anaerococcus s + m Cutibacterium s + nPseudomonas s + hydrogenalis acnes agarici ge Peptoniphilus s + mMycobacteriaceae f + n Arthrospira s − lacrimalis fusiformis geAnaerococcus s − m Mycobacterium g + n Macrococcus s + lactolyticuscaseolyticus ge Anaerococcus s + m Actinomycetales o − n Aqubacterium s− prevotii commune ge Anaerococcus s + m Rothia s − n Staphylococcus s −tetradius dentocariosa vitulinus ge Anaerococcus s − m Actinomycetaceaef − n Williamsia g − vaginalis ge Microbacterium g − m Mobiluncus g + nBacillus niacini s − ge Lactobacillus s − m Mycoplasmatales o − nMoraxella s + johnsonii lincolnii ge Dermabacter g + m Mycoplasmataceaef − n Parachlamydiaceae f + ge Dermabacter s + m Mycoplasma g − nAlkalibacterium g + hominis ge Veillonella s − m Methanobacteriales o +n Alishewanella g − atypica ge Corynebacterium s + m Methanobacteriaceaef + n Tepidimonas g − glucuronolyticum ge Dialister g − mMethanobrevibacter g + n Coxiellaceae f ge Sneathia s − mMethanobrevibacter s + n Legionellales o + sanguinegens smithii geSutterella s − m Peptococcus g + n Rhodobiaceae f + wadsworthensis geBrevundimonas g + m Solanales o − n Salana g + ge Bradyrhizobiaceae f +m Bifidobacterium s + n Salana s + pseudocatenulatum multivorans geRhodospirillaceae f + m Phyllobacterium g − n Pectobacterium g + geSphingomonadaceae f − m Bacteroides s + n Beutenbergiaceae f + eggerthiige Corynebacterium s + m Alistipes putredinis s + n Bogoriellaceae f −argentoratense ge Brachybacterium g + m Odoribacter s + n Xenophilus g −splanchnicus ge Rothia s + m Porphyromonas s + n Georgenia g −mucilaginosa asaccharolytica ge Abiotrophia g + m Prevotella bivia s − nPseudomonas s + graminis ge Granulicatella s + m Prevotella buccalis s +n Neisseria sp. s + adiacens CCUG 45853 ge Abiotrophia s + m Prevotelladisiens s − n Williamsiaceae f − defectiva ge Parabacteroides s + mArcanobacterium g − n Halobacteria c + merdae ge Bacteroides s − mEuryarchaeota p + n Prevotella micans s + stercoris ge Lactobacillus s +m Gemella s + n Flavobacterium s + rhamnosus morbillorum sp. EP372 geLactobacillus s + m Veillonella g − n Pseudospirillum g + crispatus geFlavobacteriaceae f + m Veillonella parvula s + n Macrococcus s +brunensis ge Pantoea g + m Epsilonproteobacteria c − n Thermomonas s −brevis ge Anaerococcus s + m Bifidobacteriaceae f − n Acinetobacter sp.s − octavius 2002-2301217 ge Actinotignum s + m Propionibacteriaceae f +n Effusibacillus s − schaalii pohliae ge Trueperella s − m Mollicutesc + n Corynebacterium s − bernardiae caspium ge Chryseobacterium g + mEggerthia s − n Kocuria s + catenaformis carniphila ge Bergeyella g + mRhodobacteraceae f − n Candidatus g − Protochlamydia ge Corynebacteriums − m Burkholderia g + n Adhaeribacter g − ulcerans ge Meiothermus g mFusobacteria p − n Solibacteres c − ge Actinomyces s + m Leptotrichia g− n Solibacterales o − europaeus ge Facklamia g + m Rothia g − nSolibacteraceae f − ge Facklamia sp. s + m Actinomyces neuii s + nCandidatus g − 164-92 Solibacter ge Facklamia sp. s − m Peptoniphilus s− n Exiguobacterium s + 1440-97 lacrimalis sibiricum ge Mesorhizobiumg + m Parvimonas micra s − n Epilithonimonas g − ge Thermales o mAnaerococcus s n Chryseobacterium s + tetradius sp. BBCT14 gePhyllobacteriaceae f + m Anaerococcus s + n Cryobacterium s + vaginalispsychrotolerans ge Kocuria s − m Streptophyta p − n Bradyrhizobium s −rhizophila sp. P-45 ge Pseudomonadales o − m Bilophila g + n Comamonassp. s − P-115 ge Campylobacteraceae f + m Bilophila s + n Leucobactersp. s + wadsworthia LR-2006b ge Tessaracoccus g − m Veillonella atypicas − n Caldilineae c + ge Kluyvera s − m Corynebacterium s − nCaldilineales o + georgiana glucuronolyticum ge Collinsella s − mDialister g − n Caldilineaceae f + aerofaciens ge Campylobacter s − mDialister s − n Sphingobium sp. s − hominis pneumosintes MH60 geActinobaculum g + m Stenotrophomonas g + n Burkholderia lata s − geHalomonas s − m Sneathia s − n Deinococcus sp. s − pacifica sanguinegens3B1 ge Bacillus s − m Sutterella s + n Pseudonocardia s − pseudofirmuswadsworthensis sp. CC981102-15 ge Comamonadaceae f − m Bradyrhizobiaceaef − n Perlucidibaca g + ge Delftia g − m Rhodospirillaceae f + nMicrovirga s − aerilata ge Enterococcaceae f + m Sphingomonadaceae f − nBacillus s − nanhaiisediminis ge Rhizobiaceae f − m Rothia s − nPlanococcus sp. s − mucilaginosa ljh-25 ge Facklamia s + m Abiotrophiag + n Frigoribacterium s + languida sp. 181 ge Slackia g + mGranulicatella s − n Porphyrobacter s + adiacens sp. NMC22 ge Slackiaexigua s + m Abiotrophia s + n Microvirga sp. s + defectiva TSX10-2 geGemella sp. 933- s − m Parabacteroides s + n Comamonas sp. s + 88 merdaeRV_A09_23b ge Bifidobacteriales o + m Bacteroides s + n Pseudomonas sp.s − stercoris BM5 ge Micrococcales o − m Lautropia g − n Brachybacteriums + sp. b110-100S ge Corynebacteriales o − m Lactobacillus s + nMethylobacterium s − rhamnosus sp. CCGE4019 ge Propionibacteriales o + mLactobacillus s − n Actinomycetospora s + crispatus sp. CAP 335 geBrevibacteriaceae f − m Ralstonia g + n Arthrobacter sp. s + T2-4 geDermabacteraceae f + m Flavobacteriaceae f + n Flavobacterium s − sp.bk_25 ge Microbacteriaceae f + m Actinobacillus s − n Massilia oculi s +porcinus ge Nocardiaceae f − m Meiothermus s − n Alishewanella sp. s −silvanus Mn5-6 ge Bosea g + m Pantoea g + n Rhodopseudomonas s +thermotolerans ge Achromobacter s + m Anaerococcus s + nOrnithinimicrobium s + xylosoxidans octavius sp. X1C ge Mogibacterium g− m Kocuria g + n Brachymonas sp. s + canine oral taxon 015 gePropionibacterium s − m Chryseobacterium g + n Tepidimonas sp. s − sp.V07/12348 AK30 ge Aerococcus s + m Bergeyella g + n Microvirga sp. s −christensenii BR10193 ge Lactobacillus s − m Corynebacterium s + nOrnithinimicrobium s − fornicalis ulcerans sp. THG- GM43 ge Dorea s + mPhyllobacteriaceae f + n Kocuria sp. BRI s + longicatena 36 ge Oligellag − m Campylobacteraceae f − n Kocuria sp. LW2- s + LEVI2-W ge Oligellas − m Tessaracoccus g + n Stenotrophomonas s − urethralis sp. TV49May geStaphylococcaceae f + m Kluyvera georgiana s − n Staphylococcus s + sp.155b ge Enterobacterales o − m Collinsella s + n Geodermatophilales o +aerofaciens ge Aquabacterium g + m Campylobacter s − n Hymenobacteraceaef + hominis ge Aquabacterium s + m Caulobacteraceae f + n Luteimonas s +sp. Aqua2 mephitis ge Candidatus p + m Delftia g + n Dermatophilaceaef + Saccharibacteria ge Pseudoglutamici s − m Enterococcaceae f + nLeucobacter s + bacter albus aridicollis ge Solobacterium s + mRhizobiaceae f + s Bacteroidaceae f − moorei ge Veillonella ratti s + mSlackia g + s Bacteroides g − ge Lactobacillus s − m Slackia exigua s +s Bacteroides s + jensenii thetaiotaomicron ge Granulicatella g − mGemella sp. 933- s + s Bacteroides s − 88 uniformis ge Flavobacteriiac + m Bifidobacteriales o − s Bacteroides s − vulgatus ge Bulleidia g −m Micrococcales o − s Roseburia g + ge Bulleidia s + m Corynebacterialeso + s Faecalibacterium s − extructa prausnitzii ge Brucellaceae f − mPropionibacteriales o + s Desulfovibrio g + ge Deinococcales o − mAchromobacter s + s Acidaminococcus g + xylosoxidans geMethylobacteriaceae f + m Mogibacterium g − s Herbaspirillum g − geSolobacterium g + m Propionibacterium s + s Herbaspirillum s − sp.V07/12348 seropedicae ge Pseudomonas s − m Aerococcus s + sBacteroidetes p − brenneri christensenii ge Actinomyces s + mLactobacillus s + s Proteobacteria p − radingae fornicalis geActinomyces s − m Dorea longicatena s + s Firmicutes p − turicensis geOlsenella g − m Staphylococcaceae f + s Sarcina g − ge Chromatiales o +m Enterobacterales o + s Streptococcaceae f + ge Oceanospirillales o − mAquabacterium g + s Streptococcus g + ge Pseudomonadaceae f − mAquabacterium sp. s + s Clostridium g − Aqua2 ge Catenibacterium g − mCandidatus p + s Actinobacteria c + Saccharibacteria ge Globicatella s +m Solobacterium s + s Lachnospira s + sulfidifaciens mooreipectinoschiza ge Granulicatella s − m Lactobacillus s − sBetaproteobacteria c + elegans jensenii ge Lactobacillus s − mGranulicatella g + s Deltaproteobacteria c − iners ge Anaeroglobus g − mFlavobacteriia c + s Veillonellaceae f − ge Anaeroglobus s − mDeinococcales o − s Clostridiaceae f − geminatus ge Pseudoglutamici s +m Methylobacteriaceae f − s Phascolarctobacterium g + bacter cumminsiige Megamonas g − m Burkholderiaceae f − s Phascolarctobacterium s +faecium ge Corynebacterium s − m Solobacterium g + s Lactobacillaceae f− mastitidis ge Peptoniphilus g − m Olsenella g − s Sutterella g − geSphingobium g − m Pseudomonadaceae f + s Bacteroides s + caccae geNovosphingobium g + m Pasteurellales o − s Verrucomicrobiales o − geAnaerococcus g + m Catenibacterium g + s Holdemania g + ge Sneathia g −m Aerosphaera g + s Verrucomicrobia p − ge Thalassospira g + mAerosphaera taetra s + s Oxalobacteraceae f + ge Brevibacterium s + mGranulicatella s + s Burkholderiales o + paucivorans elegans gePorphyromonadaceae f − m Finegoldia g + s Coriobacteriaceae f + gePrevotellaceae f + m Anoxybacillus g + s Eggerthella g + geLactobacillus sp. s + m Anaeroglobus s + s Coriobacteriia c + CR-609Sgeminatus ge Actinomyces s + m Megamonas g s Coriobacteriales o +hongkongensis ge Lactobacillus s − m Peptoniphilus g − s Blautia luti s− coleohominis ge Methanobacteria c − m Novosphingobium g + s Bacilli c− ge Varibaculum g − m Anaerococcus g + s Bacteroides sp. s − AR20 geVaribaculum s − m Sneathia g − s Oscillospira g + cambriense geCorynebacterium s − m Thalassospira g + s Bacteroidales o − spheniscorumge Peptococcaceae f − m Porphyromonadaceae f + s Shuttleworthia g + geBacillaceae f − m Prevotellaceae f − s Clostridia c − ge Aerococcaceaef + m Methanobacteria c + s Clostridiales o − ge Carnobacteriaceae f − mVaribaculum g + s Lachnospiraceae f + ge Megasphaera s + mPeptococcaceae f + s Peptostreptococcaceae f + micronuciformis geAcidaminococcus s + m Bacillaceae f − s Lactobacillies o − intestini geVeillonella s + m Aerococcaceae f + s Desulfovibrionaceae f +montpellierensis ge Thermaceae f m Carnobacteriaceae f + s Bacteroidia c− ge Deinococci c − m Megasphaera s + s Actinobacteria p +micronuciformis ge Dialister sp. s + m Deinococci c − s Verrucomicrobiaec − E2_20 ge Actinotignum s + m Dialister sp. E2_20 s − sVerrucomicrobiaceae f − urinale ge Propionibacterium s − mPropionibacterium s + s Anaerostipes g − sp. MSP09A sp. MSP09A geStreptococcus s + m Flavobacteriales o + s Desulfovibrionales o +pasteurianus ge Flavobacteriales o + m Fusobacteriia c − sOscillospiraceae f − ge Actinobaculum s − m Fusobacteriales o − sFaecalibacterium g − massiliense ge Propionimicrobium g + mFusobacteriaceae f − s Akkermansia g − ge Fusobacteriaceae f + mRhodospirillales o + s Akkermansia s − muciniphila ge Rhodospirillales o− m Rhodobacterales o − s Hespellia g − ge Sphingomonadales o − mSphingomonadales o + s Marvinbryantia g − ge Bacteroides s − mCaulobacterales o + s Subdoligranulum g − massiliensis ge Neisseriales o− m Bacteroides s + s Flavonifractor s + massiliensis plautii geCampylobacterales o + m Neisseriales o − s Bacteroides s + finegoldii geSubdoligranulum s + m Campylobacterales o − s Lactonifactor s −variabile longoviformis ge Alistipes s − m Subdoligranulum s + sRoseburia s + finegoldii variabile inulinivorans ge Peptoniphilus s − mBifidobacterium s − s Blautia wexlerae s − sp. 2002-38328 longum gePeptoniphilus s − m Dialister invisus s + s Lactonifactor g − sp. 2002-2300004 ge Actinomyces sp. s + m Peptoniphilus sp. s + s Ruminococcaceaef − 2002-2301122 2002-38328 ge Curvibacter s + m Peptoniphilus sp. s − sClostridiales f f + gracilis 2002-2300004 XIII. Incertae Sedis geBacillus sp. T41 s − m Sutterella s + s Blautia g − stercoricanis geSutterella s − m Oribacterium g + s Roseburia sp. s + stercoricanis11SE39 ge Fastidiosipila g − m Porphyromonas s − s Bacteroides sp. s −uenonis D22 ge Fastidiosipila s − m Odoribacter g + s Blautia faecis s −sanguinis ge Cloacibacterium s + m Bacteroides s + s Selenomonadales o −normanense salyersiae ge Helcococcus s − m Roseburia hominis s + sAcidaminococcaceae f + sueciensis ge Pseudoclavibacter g + m Roseburiafaecis s + s Negativicutes c − ge Oribacterium g + m Dialister s + sStreptococcus sp. s + propionicifaciens BS35a ge Curvibacter g + mBacteroides s + s Sutterellaceae f − plebeius ge Porphyromonas s − mBacteroides s − s Fusicatenibacter s − uenonis coprocola saccharivoransge Odoribacter g + m Porphyromonas s − s Blautia sp. YHC-4 s + someraege Corynebacterium s + m Shinella g s Intestinimonas g + sp. 2300500 geBacteroides s − m Alistipes shahii s + s Fusicatenibacter g − salyersiaege Roseburia s + m Bacteroides s + s Eisenbergiella g hominisintestinalis ge Roseburia faecis s + m Peptostreptococcus s − sEisenbergiella s stomatis tayi ge Dialister s − m Bergeyella sp. AF14s + s Peptoclostridium g − propionicifaciens ge Dialister s − mBacteroides dorei s − s Erysipelatoclostridium g − micraerophilus geBacteroides s − m Peptoniphilus sp. s + s Campylobacter g − plebeiusgpac018A ge Bacteroides s − m Bacteroides sp. s + s Achromobacter g −coprocola XB12B ge Porphyromonas s + m Parabacteroides g + sFlavobacterium g + somerae ge Parabacteroides s − m Anoxybacillus sp.s + s Pseudomonas g − goldsteinii HT14 ge Alistipes shahii s − mPrevotella s − s Ralstonia s + timonensis pickettii ge Bacteroides s − mBarnesiella g + s Rhizobiales o + intestinalis ge Pelomonas g + mLysinibacillus g − s Bradyrhizobium g + ge Bergeyella sp. s + mHowardella g + s Rhizobium g + AF14 ge Bacteroides s − m Anaerococcus s− s Mesorhizobium s + dorei murdochii loti ge Peptoniphilus s + mAcinetobacter sp. s − s Methylobacterium g − sp. gpac018A RBE2CD-114 gePeptoniphilus s + m Streptococcus sp. s + s Moraxellaceae f + sp.gpac018B 11aTha1 ge Peptoniphilus s + m Prevotella amnii s − sAcinetobacter g − sp.gpac148 ge Bacteroides sp. s + m Alloscardovia g −s Moraxella g + XB12B ge Moryella s − m Alloscardovia s − sNeisseriaceae f + indoligenes omnicolens ge Parabacteroides g − mVeillonella rogosae s − s Neisseria g + ge Anoxybacillus s + m Megamonass s Neisseria mucosa s + sp. HT14 funiformis ge Prevotella s − mAlistipes sp. EBA6- s + s Neisseria s − timonensis 25cl2 elongata geBarnesiella g − m Bacteroides sp. s + s Neisseria s − EBA5-17 macacae geLysinibacillus g − m Paraprevotella s + s Alcaligenaceae f − clara geHowardella g − m Oscillibacter g + s Ochrobactrum g + ge Citrobacter sp.s − m Anaerobacillus s + s Enterobacteriaceae f − BW4alkalidiazotrophicus ge Anaerococcus s + m Alistipes sp. s + sCitrobacter g + murdochii NML05A004 ge Cronobacter g − m Barnesiella s +s Enterobacter g − intestinihominis ge Acinetobacter s − mParasutterella s − s Klebsiella g − sp. RBE2CD-114 excrementihominis geStreptococcus s + m Porphyromonas s + s Kluyvera g + sp. 11Tha1 bennonisge Methylobacterium s + m Cloacibacterium g + s Pasteurellaceae f − sp.CBMB45 ge Prevotella amnii s − m Synergistetes p − s Actinobacillus g +ge Alloscardovia g + m Clostridiales f XI. f + s Haemophilus s +Incertae Sedis parainfluenzae ge Alloscardovia s + m Parvimonas g − sBacteroides s − omnicolens fragilis ge Rhizobium sp. s − m Tenericutesp + s Campylobacter s − sc-w gracilis ge Veillonella s + mCorynebacterium s + s Campylobacter s − rogosae freiburgense ureolyticusge Jonquetella g + m Delftia lacustris s + s Butyrivibrio g + geJonquetella s + m Novosphingobium s + s Porphyromonas g − anthropisediminicola ge Megamonas s − m Butyricimonas g + s Prevotella g −funiformis ge Bacillus sp. CZb s − m Parasutterella g − s Fusobacteriumg − ge Alistipes sp. s + m Enterorhabdus g − s Fusobacterium s −EBA6-25cl2 nucleatum ge Bacteroides sp. s − m Phyllobacterium s − sFusobacterium s + EBA5-17 sp. T50 periodonticum ge Paraprevotella s + mNegativicoccus s − s Desulfovibrio s − clara succinicivorans piger geSerratia s − m Bacteroides clarus s − s Megasphaera g + nematodiphila geOscillibacter g − m Sutterella sp. YIT s − s Chromatiaceae f + 12072 gePantoea vagans s + m Bifidobacterium s s Rhodopseudomonas g +kashiwanohense ge Anaerobacillus s − m Porphyromonas sp. s − sGammaproteobacteria c − alkalidiazotrophicus 2024b ge Rhodopseudomonas s− m Lautropia sp. TeTO s − s Peptostreptococcus g + boonkerdii geChryseobacterium s + m Pyramidobacter g + s Finegoldia magna s − sp.MH28 ge Alistipes sp. s + m Anaerostipes s − s Peptostreptococcus sNML05A004 hadrus anaerobius ge Brevibacterium s − m Synergistia c − sMicrococcaceae f + ravenspurgense ge Dialister s − m Synergistales o − sMicrococcus g + succinatiphilus ge Barnesiella s − m Synergistaceae f −s Micrococcus s − intestinihominis luteus ge Pseudomonas s + mAnaerosporobacter g + s Staphylococcus g − sp. GmFRB023 ge Porphyromonass − m Lactobacillus sp. s + s Staphylococcus s − bennonis BL302 aureusge Cloacibacterium g + m Campylobacter sp. s − s Staphylococcus s +10_1_50 epidermidis ge Gemella s + m Lactobacillus sp. s + sStaphylococcus s + asaccharolytica 7_1_47FAA simulans ge Bosea sp. s + mVeillonella sp. oral s + s Deinococcus- p + BIWAKO-01 taxon 780 Thermusge Peptoniphilus s + m Bilophila sp. s + s Streptococcus s + duerdenii4_1_30 thermophilus ge Peptoniphilus s + m Anaerobacillus g − sStreptococcus s + koenoeneniae parasanguinis ge Murdochiella s + mCorynebacterium s + s Streptococcus s − asaccharolytica sp. NML 97-0186dysgalactiae ge Synergistetes p + m Actinomyces sp. s + s Enterococcusg + oral taxon 175 ge Cloacibacillus g − m Peptococcus sp. s − sAerococcus g + oral taxon 168 ge Cloacibacillus s − m Streptococcus sp.s − s Gemella g − evryensis oral taxon G59 ge Clostridiales f f + mStomatobaculum s + s Atopobium g + XI. Incertae longum Sedis geParvimonas g + m Blautia stercoris s + s Bacillales o + ge Tenericutesp + m Peptoniphilus sp. s + s Bacillus g + 1-14 ge Corynebacterium s + mPeptoniphilus sp. s + s Lysinibacillus s + freiburgense 7-2 sphaericusge Delftia lacustris s − m Ralstonia sp. s + s Clostridioides s +S2.MAC.005 difficile ge Novosphingobium s + m Stenotrophomonas s − sLactobacillus g − sediminicola sp. KITS-1 ge Butyricimonas g − mAlistipes sp. HGB5 s s Lactobacillus s − plantarum ge Bifidobacterium s− m Negativicoccus g − s Lactobacillus s − sp. 120 salivarius geBrevibacterium s + m Shinella sp. DR33 s s Corynebacteriaceae f +massiliense ge Paraprevotella g − m Bacteroides sp. s + s Actinomycesg + SLC1-38 ge Parasutterella g − m Lactobacillus sp. s + s Actinomycess + Akhmr01 odontolyticus ge Enterorhabdus g + m Veillonella sp. s + sArthrobacter g + CM60 ge Negativicoccus s + m Actinomyces sp. s + sBifidobacterium g − succinicivorans ICM54 ge Mycobacterium s + mBifidobacterium s + s Brevibacterium g + sp. T126 sp. MSX5B geBacteroides s − m Campylobacter sp. s − s Corynebacterium g − clarusFOBRC15 ge Bifidobacterium s − m Fusobacterium sp. s − s Corynebacteriums + kashiwanohense ACB2 diphtheriae ge Porphyromonas s − m Fusobacteriumsp. s − s Propionibacterium g + sp. 2024b AS2 ge Porphyromonas s − mFusobacterium sp. s − s Cutibacterium s + sp. 2026 CM21 acnes gePyramidobacter g + m Veillonella sp. s − s Mycobacteriaceae f − AS16 gePseudoclavibacter s + m Veillonella sp. s − s Mycobacterium g − sp.Timone MSA12 ge Anaerostipes s + m Anaerococcus sp. s + s Rhodococcus g− hadrus 8404299 ge Synergistia c + m Anaerococcus sp. s + s Rhodococcuss − 8405254 erythropolis ge Synergistales o + m Anaerococcus sp. s + sActinomycetales o + 9401487 ge Synergistaceae f + m Anaerococcus s + sRothia s + provencensis dentocariosa ge Anaerosporobacter g − mBradyrhizobium s − s Actinomycetaceae f + sp. 68A4SAPT ge Lactobacillussp. s − m Delftia sp. BN- s + s Mobiluncus g − BL302 SKY3 geOchrobactrum s − m Methylobacterium s − s Mobiluncus s − sp. SCTS14 sp.RK-2008-1 curtisii ge Anaerostipes sp. s − m Staphylococcus sp. s + sMobiluncus s + 3_2_56FAA C9I2 mulieris ge Campylobacter s + mEnterobacter sp. s + s Mycoplasmatales o + sp. 10_1_50 BS2-1 geLactobacillus sp. s + m Megasphaera sp. s − s Mycoplasmataceae f +7_1_47FAA UPII 199-6 ge Veillonella sp. s − m Sphingomonas sp. s + sMycoplasma g + oral taxon 780 540 ge Microbacterium s + m Coprobacters + s Methanobacteriales o − yannicii fastidiosus ge Corynebacterium s +m Actinomyces sp. s + s Methanobacteriaceae f − canis ICM58 geTessaracoccus s − m Leptotrichiaceae f − s Methanobrevibacter g − sp.SL014B-79A ge Peptoniphilus s + m Faecalibacterium s − sMethanobrevibacter s − sp. JCM 8143 sp. canine oral smithii taxon 147 geCorynebacterium s + m Murdochiella g + s Gardnerella g − sp. NML96- 0085ge Anaerobacillus g − m Lachnoanaerobaculum g + s Gardnerella s −vaginalis ge Corynebacterium s + m Streptococcus sp. s + s Peptococcus g− sp. NML 97- GMD6S 0186 ge Peptoniphilus s + m Varibaculum sp. s + sHalomonas g + sp. oral taxon CCUG 45114 375 ge Brevundimonas s + mStomatobaculum g + s Solanales o − sp. V3M6 ge Lactobacillus sp. s + mPrevotella sp. S4- s − s Sphingomonas g − TAB-22 10 ge Peptoniphilus s +m Solobacterium sp. s + s Phyllobacterium g + coxii S4-A19 geStomatobaculum s + m Streptococcus sp. s − s Bacteroides s − longum2011_Oral_MS_A3 eggerthii ge Herbaspirillum s − m Veillonella sp. s + sOdoribacter s + huttiense 2011_Oral_VSA_D3 splanchnicus ge Bacteroidess + m Eggerthia g − s Porphyromonas s + stercorirosoris asaccharolyticage Peptoniphilus s + m Alloprevotella g − s Prevotella bivia s − sp.1-14 ge Peptoniphilus s + m Anaerococcus sp. s + s Prevotella s + sp.7-2 S8 87-3 buccalis ge Streptococcus s − m Porphyromonas sp. s − sAlphaproteobacteria c − sp. XQ-1 S8 86-12 ge Stenotrophomonas s + mSlackia sp. S8 F4 s + s Halomonadaceae f + sp. KITS-1 ge Alistipes sp. s− m Finegoldia sp. S9 s + s Gemella s − HGB5 AA1-5 morbillorum geNegativicoccus g + m Murdochiella sp. s + s Rhizobium etli s + S9 PR-10ge Bacteroides sp. s + m Peptoniphilus sp. s + s Veillonella g − SLC1-38S9 PR-13 ge Lactobacillus sp. s + m Coprobacter g + s Veillonella s −Akhmro1 parvula ge Acinetobacter s − m Staphylococcus sp. s + sEpsilonproteobacteria c − sp. C-S-NA3 334802 ge Stenotrophomonas s − mSenegalimassilia g − s Bifidobacteriaceae f − sp. C-S-TSA3 geAcinetobacter s − m Romboutsia g + s Propionibacteriacae f + sp. RE 51ge Veillonella sp. s + m Terrisporobacter g + s Mollicutes c + CM60 geActinomyces sp. s + m Intestinibacter g + s Rhodobacteraceae f + ICM54ge Bifidobacterium s + m Peptoniphilaceae f + s Burkholderia g + sp.MSX5B ge Campylobacter s + m Atopobiaceae f − s Xanthomonadaceae f − sp.FOBRC15 ge Fusobacterium s − m Tissierellia c + s Leptotrichia g − sp.ACB2 ge Fusobacterium s − m Tissierellales o + s Cutibacterium s + sp.AS2 avidum ge Fusobacterium s + m Veillonellales o + s Anaerococcus s −sp. CM21 hydrogenalis ge Veillonella sp. s − m Selenomonadaceae f + sPeptoniphilus s − AS16 lacrimalis ge Veillonella sp. s − m Cutibacteriumg s Anaerococcus s MSA12 lactolyticus ge Anaerococcus s − mTannerellaceae f + s Parvimonas s − sp. 8404299 micra ge Anaerococcuss + m Spirochaetales o − s Anaerococcus s − provencensis prevotii geBradyrhizobium s + m Deinococcus g − s Anaerococcus s + sp. 68A4SAPTtetradius ge Sphingomonas s − m Lactococcus g + s Anaerococcus s − sp.24T vaginalis ge Enterococcus sp. s + m Johnsonella g + s Microbacteriumg − SI-4 ge Bosea sp. R- s + m Deinococcaceae f − s Streptophyta p −46060 ge Lactobacillus sp. s − m Spirochaetes p − s Bilophila g +MYMRS/TEN2 ge Delftia sp. BN- s − m Spirochaetia c − s Dermabacter s +SKY3 hominis ge Moraxella sp. 26 s − m Phascolarctobacterium s − sVeillonella s + succinatutens atypica ge Staphylococcus s − mCampylobacter s + s Corynebacterium s − sp. WB18-16 showaeglucuronolyticum ge Methylobacterium s + m Comamonas g − sStenotrophomonas g − sp. RK-2008-1 ge Enterococcus sp. s + m Neisseria s− s Brevundimonas g − C6I11 flavescens ge Staphylococcus s − m Neisseriasicca s + s Bradyrhizobiaceae f + sp. C9I2 ge Brachybacterium s + mNeisseria canis s + s Rhodospirillaceae f − sp. NIO-27 ge Megasphaerasp. s + m Bergeriella s − s Sphingomonadaceae f − UPII 199-6denitrificans ge Megasphaera sp. s − m Kingella oralis s − sCorynebacterium s + UPII 135-E argentoratense ge Sphingomonas s − mEikenella g + s Brachybacterium g + sp. 540 ge Corynebacterium s + mEikenella s + s Abiotrophia g + epidermidicanis corrodens ge Trueperellag − m Aggregatibacter s + s Granulicatella s + aphrophilus adiacens geMesorhizobium s − m Aggregatibacter s − s Abiotrophia s + sp. mat916segnis defectiva ge Coprobacter s + m Pasteurella g − s Parabacteroidess + fastidiosus merdae ge Actinomyces sp. s + m Rodentibacter s − sBacteroides s + ICM58 pneumotropicus stercoris ge Jonquetella sp. s + mPorphyromonas s + s Lautropia g + BV3C4 gingivalis ge Prevotella sp. s +m Cardiobacteriaceae f + s Lactobacillus s − BV3C7 crispatusPeptoniphilus s − m Desulfobulbus g − s Ralstonia g + sp. BV3AC2 geMegasphaera sp. s + m Selenomonas g − s Flavobacteriaceae f − BV3C16-1ge Sphingobium sp. s − m Capnocytophaga g + s Actinobacillus s + LC341porcinus ge Anaerococcus s + m Capnocytophaga s + s Pantoea g + sp. PH9gingivalis ge Leptotrichiaceae f − m Capnocytophaga s − s Anaerococcus s− sputigena octavius ge Faecalibacterium s − m Cyanobacteria p + sKocuria g − sp. canine oral taxon 147 ge Murdochiella g + mStreptococcus s + s Chryseobacterium g − mutans ge Lachnoanaerobaculumg + m Streptococcus s − s Bergeyella g + intermedius ge Streptococcuss + m Atopobium s − s Corynebacterium s + sp. GMD6S parvulum ulcerans geVaribaculum sp. s − m Atopobium rimae s − s Facklamia g + CCUG 45114 geVaribaculum sp. s + m Lactobacillus s − s Mesorhizobium g − CCUG 61255paracasei ge Propionibacterium s + m Actinomyces s − sPhyllobacteriaceae f − sp. KPL2005 viscosus ge Stomatobaculum g + mBifidobacterium s − s Kocuria s + adolescentis rhizophila ge Actinomycessp. s − m Pseudopropionibacterium s + s Pseudomonadales o − S4C9propionicum ge Atopobium sp. s − m Anaeroplasma g + s Campylobacteraceaef − MVA9 ge Atopobium sp. s + m Asteroleplasma g + s Tessaracoccus g −S3MV24 ge Atopobium sp. s + m Methanosphaera g + s Kluyvera s + S3MV26georgiana ge Atopobium sp. s + m Methanosphaera s + s Collinsella s +S3PFAA1-4 stadtmanae aerofaciens ge Atopobium sp. s − m Cardiobacteriumg + s Caulobacteraceae f − S4-5 ge Atopobium sp. s + m Vagococcus g + sHalomonas s + S4-A11a pacifica ge Dialister sp. S4- s + m Streptococcuss − s Bacillus s − 23 mitis pseudofirmus ge Finegoldia sp. s − mTannerella s − s Comamonadaceae f + S3MVA9 forsythia ge Gardnerella sp.s + m Porphyromonas s − s Delftia g + S3PF20 endodontalis gePeptoniphilus s + m Prevotella s − s Enterococcaceae f + sp. S4-13intermedia ge Prevotella sp. s + m Prevotella oralis s − s Rhizobiaceaef + S4-10 ge Solobacterium s + m Prevotella oris s − s Facklamia s + sp.S4-A19 languida ge Peptoniphilus s − m Prevotella oulorum s + s Gemellasp. 933- s + sp. S4-A10 88 ge Finegoldia sp. s + m Acetitomaculum g − sBifidobacteriales o − S5-A7 ge Negativicoccus s − m Kingella g − sMicrococcales o + sp. S5-A15 ge Corynebacterium s + m Terrisporobacters + s Propionibacteriales o + frankenforstense glycolicus ge Megasphaeras − m Veillonella dispar s − s Brevibacteriaceae f + massiliensis geCorynebacterium s + m Leptotrichia s − s Dermabacteraceae f + sp. jw37buccalis ge Streptococcus s − m Porphyromonas s + s Microbacteriaceae f− sp. catoniae 2011_Oral_MS_A3 ge Veillonella sp. s − m Corynebacteriums + s Nocardiaceae f − 2011_Oral_VSA _D3 matruchotii ge Eggerthia g − mCatonella g − s Bosea g − ge Alloprevotella g + m Catonella morbi s − sAchromobacter s − xylosoxidans ge Dialister sp. s − m Filifactor g − sMogibacterium g + S7MSR5 ge Intestinimonas s − m Capnocytophaga s − sPropionibacterium s − butyriciproducens granulosa sp. V07/12348 geLactobacillus sp. s + m Capnocytophaga s + s Lactobacillus s + C30An8haemolytica fornicalis ge Bradyrhizobium s − m Actinomyces s − sStaphylococcaceae f − sp. CCBAU georgiae 53380 ge Anaerococcus s + mActinomyces s − s Enterobacterales o − sp. S8 87-3 meyeri ge Finegoldiasp. S8 s − m Actinomyces s + s Aquabacterium g + F7 graevenitzii gePorphyromonas s − m Acidobacteria p + s Aquabacterium s + sp. S8 86-12sp. Aqua2 ge Slackia sp. S8 F4 s + m Prevotella pallens s + s Candidatusp + Saccharibacteria ge Actinomyces sp. s + m Corynebacterium s − sSolobacterium s − S9 PR-21 durum moorei ge Anaerococcus s − mStreptococcus s − s Lactobacillus s + sp. S9 PR-16 peroris jensenii geAnaerococcus s − m Mannheimia g + s Granulicatella g − sp. S9 PR-5 geFinegoldia sp. S9 s − m Alloprevotella s − s Flavobacteriia c − AA1-5tannerae ge Olsenella sp. S9 s − m Centipeda g + s Brucellaceae f + HS-6ge Peptococcus sp. s − m Centipeda s + s Deinococcales o + S9 B-15periodontii ge Peptococcus sp. s − m Cryptobacterium g − sMethylobacteriaceae f − S9 Pr-12 ge Peptoniphilus s + m Cryptobacteriums − s Burkholderiaceae f + sp. S9 PR-13 curtum ge Coprobacter g + mRothia sp. CCUG s − s Solobacterium g − 25688 ge Corynebacterium s − mMannheimia s − s Pseudomonas s − sp. granulomatis brenneri 713182/2012ge Atopobium s − m Mogibacterium s + s Actinomyces s − deltae pumilumradingae ge Parvibacter g − m Mycoplasma s + s Chromatiales o + falconisge Ralstonia sp. s − m Mycoplasma s − s Xanthomonadales o + A52 subdolumge Helcococcus s + m Pseudoflavonifractor s + s Oceanospirillales o +seattlensis capillosus ge Staphylococcus s + m Leptotrichia s + sPseudomonadaceae f − sp. 334802 trevisanii ge Senegalimassilia g + mSphingobacteriia c + s Pasteurellales o − ge Peptoniphilus s − mCardiobacteriales o + s Aerosphaera g − sp. DNF00840 ge Romboutsia g + mFilifactor alocis s − s Aerosphaera s − taetra ge Veillonella s + mTuricibacter s + s Granulicatella s − seminalis sanguinis elegans geTerrisporobacter g + m Leptotrichia wadei s + s Lactobacillus s + inersge Intestinibacter g + m Leptotrichia s − s Finegoldia g − hofstadii geAtopobiaceae f + m Leptotrichia shahii s + s Anoxybacillus g − geActinotignum g + m Leptotrichia s − s Megamonas g − goodfellowii geVeillonellales o + m Actinomyces sp. s − s Corynebacterium s + oralstrain Hal- mastitidis 1065 ge Selenomonadaceae f − m Anaerotruncus s sPeptoniphilus g − colihominis ge Cutibacterium g + m Rothia aeria s − sGallicola g − ge Tannerellaceae f − m Victivallis g + s Sphingobium g +ge Spirochaetales o + m Anaeroplasmatales o + s Novosphingobium g + geDeinococcus g − m Anaeroplasmataceae f + s Anaerococcus g − geJohnsonella g − m Turicibacter g + s Thalassospira g − ge Deinococcaceaef − m Alysiella g − s Porphyromonadaceae f − ge Spirochaetes p + mCardiobacterium s + s Prevotellaceae f − valvarum ge Spirochaetia c + mTannerella g − s Lactobacillus sp. s + CR-609S ge Bacteroides sp. s − mScardovia g − s Methanobacteria c − XB44A ge Lactobacillus s − mSphingobacteriales o + s Varibaculum g + taiwanensis g Bacteroidaceae f− m Acidobacteriia c + s Varibaculum s + cambriense g Bacteroides g − mAcidobacteriales o + s Corynebacterium s + spheniscorum g Bacteroides s− m Desulfobacterales o − s Peptococcaceae f + thetaiotaomicron gBacteroides s − m Desulfobulbaceae f − s Bacillaceae f + vulgatus gRoseburia g + m Leptotrichia s − s Aerococcaceae f + genomosp. C1 gFaecalibacterium s + m Megasphaera s − s Carnobacteriaceae f +prausnitzii genomosp. C1 g Desulfovibrio g − m Scardovia wiggsiae s − sDeinococci c + g Desulfovibrio sp. s − m Selenomonas s − sPropionibacterium s + genomosp. P5 sp. MSP09A g Acidaminococcus g − mVictivallaceae f + s Flavobacteriales o − g Herbaspirillum g + mLentisphaerae p + s Propionimicrobium g + g Herbaspirillum s + mNeisseria s − s Fusobacteriaceae f − seropedicae bacilliformis gBacteroidetes p − m Actinomyces s − s Rhodospirillales o − dentalis gProteobacteria p − m Victivallales o + s Rhodobacterales o + gFirmicutes p + m Bacteroides nordii s s Sphingomonadales o − g Sarcina g− m Capnocytophaga s − s Caulobacterales o − genosp. AHN8471 gClostridium g + m Capnocytophaga s s Bacteroides s + sp. AHN10044massiliensis g Actinobacteria c + m Capnocytophaga s − s Neisserialeso + sp. AHN9576 g Lachnospira g + m Capnocytophaga s + sCampylobacterales o − sp. AHN9687 g Lachnospira s + m Bergeriella g − sSubdoligranulum s − pectinoschiza variabile g Betaproteobacteria c − mStreptococcus s + s Alistipes s + dentirousetti finegoldii gDeltaproteobacteria c − m Parabacteroides s + s Bifidobacterium s −johnsonii longum g Veillonellaceae f − m Howardella s s Dialisterinvisus s + ureilytica g Clostridiaceae f + m Opitutae c s Peptoniphilussp. s − 2002-38328 g Phascolarctobacterium g − m Puniceicoccales o sPeptoniphilus sp. s − 2002-2300004 g Phascolarctobacterium s − mAggregatibacter g − s Curvibacter s + faecium gracilis gLactobacillaceae f + m Prevotella s − s Bacillus sp. T41 s + nanceiensisg Dorea s − m Prevotella s + s Sutterella s − formicigenerans maculosastercoricanis g Pseudobutyrivibrio g + m Veillonella sp. s − sBacteroides sp. s + 6_1_27 35AE37 g Verrucomicrobiales o − m Actinomycess + s Pseudoclavibacter g + massiliensis g Holdemania g − mLachnoanaerobaculum s + s Oribacterium g − saburreum g Holdemania s − mBacteroides sp. s + s Curvibacter g + filiformis 2_2_4 g Fibrobacteres p− m Bacteroides sp. s − s Porphyromonas s + 3_1_40A uenonis gVerrucomicrobia p − m Gordonibacter s s Odoribacter g + pamelaeae gOxalobacteraceae f + m Atopobium sp. s − s Dialister s − DMCT15023propionicifaciens g Burkholderiales o − m Olsenella sp. s − s Dialisters − F0004 micraerophilus g Coriobacteriaceae f + m Blautia gluceraseas + s Bacteroides s + plebeius g Eggerthella g − m Bacteroides sp. s + sBacteroides s − DJF_B097 coprocola g Coriobacteriia c + m Actinomycesoris s − s Alistipes shahii s + g Coriobacteriales o + m Butyricimonas s− s Peptoniphilus sp. s + virosa gpac018A g Blautia luti s + mLeptotrichia s − s Peptoniphilus sp. s − hongkongensis gpac148 gBacteroides sp. s − m Chitinophagaceae f + s Bacteroides sp. s − AR29XB12B g Collinsella g + m Robinsoniella g + s Moryella s − indoligenes gOscillospira g − m Propionibacterium s + s Anoxybacillus sp. s − sp.‘Oral Taxon 191’ HT14 g Bacteroidales o − m Prevotella s − s Prevotellas − aurantiaca timonensis g Rikenellaceae f + m Neisseria s + sBarnesiella g − shayeganii g Clostridia c + m Lachnoanaerobaculum s − sLysinibacillus g + umeaense g Clostridiales o + m Odoribacter laneus s +s Citrobacter sp. s + BW4 g Lachnospiraceae f + m Gordonibacter g + sPseudomonas sp. s + G1116 g Peptostreptococcaceae f + m Fretibacterium s− s Anaerococcus s − fastidiosum murdochii g Lactobacillales o + mOribacterium sp. s − s Acinetobacter sp. s − oral taxon 078 RBE2CD-114 gDorea g + m Prevotella sp. oral s − s Streptococcus sp. s + taxon 29911aTha1 g Desulfovibrionaceae f − m Leptotrichia sp. s − sMethylobacterium s − oral taxon 225 sp. CBMB45 g Bacteroidia c − mOribacterium sp. s − s Megamonas s − oral taxon 102 funiformis gActinobacteria p + m Alloprevotella rava s + s Alistipes sp. s +EBA6-25cl2 g Verrucomicrobiae c − m Parvimonas sp. s − s Bacteroides sp.s + oral taxon 110 EBA5-17 g Verrucomicrobiaceae f − m Prevotella sp.WAL s − s Paraprevotella s − 2039G clara g Fibrobacteria c − m Neisserias − s Serratia s − skkuensis nematodiphila g Fibrobacteraceae f − mCapnocytophaga s + s Oscillibacter g − sp. oral taxon 329 g Anaerostipesg + m Actinomyces s + s Anaerobacillus s + sp. oral taxon 178alkalidiazotrophicus g Desulfovibrionales o − m Capnocytophaga s − sRhodopseudomonas s + sp. oral taxon 338 boonkerdii g Oscillospiraceae f− m Actinomyces s − s Alistipes sp. s + sp. oral taxon 170 NML05A004 gFaecalibacterium g + m Actinomyces sp. s + s Dialister s + oral taxon448 succinatiphilus g Fibrobacterales o − m Capnocytophaga s + sBarnesiella s − sp. oral taxon 335 intestinihominis g Alistipes g + mCapnocytophaga s + s Parasutterella s − sp. oral taxon 336excrementihominis g Akkermansia g − m Desulfobulbus sp. s − sPseudomonas s − oral taxon 041 sp. GmFRB023 g Akkermansia s − mLeptotrichia sp. s + s Porphyromonas s − muciniphila oral taxon 223bennonis g Hespellia g − m Oribacterium sp. s + s Cloacibacterium g −oral taxon 108 g Anaerotruncus g + m Shuttleworthia sp. s − s Bosea sp.s + oral taxon G69 BIWAKO-01 g Marvinbryantia g − m Streptococcus sp.s + s Synergistetes p + oral taxon G63 g Subdoligranulum g + mTannerella sp. oral s + s Clostridiales f XI. f − taxon HOT-286 IncertaeSedis g Flavonifractor s − m Parvimonas sp. s − s Parvimonas g − plautiioral taxon 393 g Lactonifactor s − m Caldicoprobacteraceae f − sTenericutes p + longoviformis g Lactonifactor g − m Leptotrichia sp. s −s Corynebacterium s + PG10 freiburgense g Moryella g − m Leptotrichiasp. s + s Delftia lacustris s + PTE15 g Adlercreutzia s − mMethylobacterium s − s Novosphingobium s + equolifaciens longumsediminicola g Adlercreutzia g − m Capnocytophaga s + s Paraprevotella g− sp. CM59 g Erysipelotrichia c − m Mogibacterium sp. s − sParasutterella g − CM50 g Erysipelotrichales o − m Mogibacterium sp. s −s Enterorhabdus g − CM96 g Ruminococcaceae f + m Selenomonas sp. s + sPhyllobacterium sp. s − CM52 T50 g Clostridiales f f + m Actinomyces sp.s − s Negativicoccus s − XIII. Incertae ICM41 succinicivorans Sedis gAcidaminococcus s − m Actinomyces sp. s + s Bacteroides s + sp. D21ICM47 clarus g Blautia g + m Atopobium sp. s + s Porphyromonas s + ICM57sp. 2024b g Roseburia sp. s + m Fusobacterium sp. s − s Lautropia sp.s + 11SE39 CM22 TeTO g Bacteroides sp. s − m Oribacterium sp. s + sPseudoclavibacter s + D22 CM12 sp. Timone g Blautia sp. Ser8 s + mOribacterium sp. s − s Anaerostipes s + OBRC12 hadrus g Blautia faeciss + m Lachnoanaerobaculum s + s Synergistia c + sp. OBRC5-5 gSelenomonadales o − m Lachnoanaerobaculum s + s Synergistales o + sp.MSX33 g Acidaminococca ceae f − m Vagococcus sp. s − s Synergistaceaef + SIX2(2011) g Negativicutes c − m Lachnoanaerobaculum s + sKlebsiella sp. B12 s − orale g Eggerthella sp. s − m Actinomyces sp. s +s Anaerosporobacter g − HGA1 ZSY-1 g Flavonifractor g − m Pseudomonassp. s − s Lactobacillus sp. s + KB23 BL302 g Sutterellaceae f − mPseudoflavonifractor g + s Ochrobactrum s + sp. SCTS14 g Anaerostipessp. s + m Fusobacterium sp. s − s Lactobacillus sp. s + 5_1_63FAA OBRC17_1_47FAA g Fusicatenibacter s + m Dielma fastidiosa s − s Veillonellasp. s + saccharivorans oral taxon 780 g Blautia sp. YHC-4 s − mVeillonella sp. JL-2 s − s Microbacterium s + yannicii g Intestinimonasg − m Neisseria oralis s − s Corynebacterium s + canis gFusicatenibacter g + m Veillonella s + s Bilophila sp. s + tobetsuensis4_1_30 g Eisenbergiella g − m Actinomyces sp. s − s Anaerobacillus g +ph3 g Eisenbergiella s − m Neisseria sp. s + s Corynebacterium s − tayi104(2012) sp. NML 97-0186 g Candidatus g + m Phascolarctobacterium s sActinomyces sp. s − Soleaferrea sp. 377 oral taxon 175 g Campylobacter s− m Streptococcus sp. s + s Peptococcus sp. s − concisus 2011_Oral_MS_H4oral taxon 168 g Campylobacter s − m Veillonella sp. s + s Peptoniphilussp. s − rectus 2011_Oral_VSA_B12 oral taxon 375 g Achromobacter g + mVeillonella sp. s + s Streptococcus sp. s + 2011_Oral_VSA_C9 oral taxonG59 g Flavobacterium g + m Rothia sp. THG-N7 s + s Brevundimonas s + sp.V3M6 g Rhizobiales o + m Capnocytophaga s − s Lactobacillus sp. s − sp.HS5_2W_I24 TAB-22 g Rhizobium g + m Actinomyces sp. s + s Stomatobaculums + S6-Spd3 longum g Mesorhizobium s − m Lentisphaeria c + sHerbaspirillum s + loti huttiense g Moraxellaceae f + m Candidatus g + sBlautia stercoris s + Saccharimonas g Acinetobacter g + m Bacteroidessp. s + s Peptoniphilus sp. s − J1511 1-14 g Moraxella g + mTessaracoccus s + s Peptoniphilus sp. s + lapidicaptus 7-2 gNeisseriaceae f + m Prevotella sp. s + s Ralstonia sp. s + HJM029S2.MAC.005 g Neisseria g + m Fretibacterium g − s Stenotrophomonas s +sp. KITS-1 g Neisseria s + m Butyricimonas s + s Negativicoccus g −mucosa faecihominis g Alcaligenaceae f − m Butyricimonas s s Shinellasp. DR33 s + paravirosa g Ochrobactrum g + m Aeromonas g + sAcinetobacter sp. s − C-S-NA3 g Enterobacteriaceae f − m Roseburiacecicola s − s Stenotrophomonas s + sp. C-S-TSA3 g Citrobacter g + mFusobacterium s − s Veillonella sp. s − ulcerans CM60 g Enterobacter g −m Rhodobacter g + s Actinomyces sp. s + ICM54 g Klebsiella g − mOscillatoriales o + s Veillonella sp. s − AS16 g Kluyvera g − mLeuconostoc g − s Veillonella sp. s + MSA12 g Proteus mirabilis s + mBlautia hansenii s − s Anaerococcus sp. s + 8405254 g Serratia g + mStreptococcus s + s Anaerococcus sp. s − equinus 9401487 g Haemophiluss + m Acholeplasmataceae f + s Anaerococcus s − influenzae provencensisg Bacteroides s − m Acholeplasma g + s Sphingomonas s + fragilis sp. 24Tg Parabacteroides s − m Bifidobacterium s + s Enterococcus sp. s +distasonis animalis SI-4 g Campylobacter s − m Bacteroides ovatus s − sBosea sp. R- s − gracilis 46060 g Campylobacter s − m Leuconostocaceae f− s Delftia sp. BN- s − ureolyticus SKY3 g Porphyromonas g − mAeromonadaceae f + s Moraxella sp. 26 s + g Prevotella g + mAeromonadales o + s Staphylococcus s + sp. WB18-16 g Fusobacterium g + mAcholeplasmatales o + s Methylobacterium s − sp. RK-2008-1 gFusobacterium s + m Planococcaceae f + s Enterococcus sp. s − mortiferumC6I11 g Fusobacterium s + m Acidobacteriaceae f s Staphylococcus s −nucleatum sp. C9I2 g Fusobacterium s + m Anaerosporobacter s − sBrachybacterium s + periodonticum mobilis sp. NIO-27 g Megasphaera g − mAlistipes s − s Sphingomonas s − massiliensis sp. 540 gGammaproteobacteria c − m Veillonella sp. ADV s − s Corynebacterium s −269.01 epidermidicanis g Peptostreptococcus g − m Bacteroides s − sMesorhizobium s − coprophilus sp. mat916 g Micrococcaceae f + mParaprevotella s − s Murdochiella g + xylaniphila g Staphylococcus s + mAlistipes s + s Lachnoanaerobaculum g + aureus indistinctus gStreptococcus s + m Aeromonas sp. B11 s + s Streptococcus sp. s +gordonii GMD6S g Streptococcus s − m Pseudomonas sp. s + s Varibaculumsp. s − parasanguinis a111-5 CCUG 45114 g Streptococcus s + mLactococcus sp. s − s Varibaculum sp. s + anginosus MH5-2 CCUG 61255 gStreptococcus s − m Leuconostoc sp. s − s Propionibacterium s +dysgalactiae C7I4 sp. KPL2005 g Enterococcus s − m Butyricimonas sp. s +s Stomatobaculum g + faecalis 214-4 g Aerococcus g + m Sutterella sp.252 s + s Actinomyces sp. s − S4-C9 g Aerococcus s − m Solanaceae f − sAtopobium sp. s + urinae S3MV24 g Atopobium g + m Staphylococcus s − sNegativicoccus s − saprophyticus sp. S5-A15 g Atopobium s + mCutibacterium s + s Corynebacterium s + minutum granulosum sp. jw37 gBacillus g − m Intrasporangiaceae f + s Streptococcus sp. s −2011_Oral_MS_A3 g Lysinibacillus s − m Actinomyces s + s Veillonella sp.s + sphaericus genomosp. C1 2011_Oral_VSA_D3 g Erysipelatoclostridium s− m Cytophagia c − s Alloprevotella g + ramosum g Lactobacillus s + mCytophagales o − s Dialister sp. s − acidophilus s7MSR5 g Lactobacilluss − m Simonsiella g + s Bradyrhizobium s + plantarum sp. CCBAU 53380 gLactobacillus s + m Simonsiella s + s Anaerococcus sp. s + gasserimuelleri S8 F2 g Lactobacillus s − m Streptobacillus g + s Finegoldiasp. S8 s − fermentum F7 g Lactobacillus s − m Kocuria kristinae s − sFinegoldia sp. S9 s + salivarius AA1-5 g Lactobacillus s − m Janibacterg + s Murdochiella sp. s + vaginalis S9 PR-10 g Corynebacteriaceae f − mPlanomicrobium g + s Peptococcus sp. s − S9 Pr-12 g Actinomyces s − mNeisseria s − s Peptoniphilus sp. s − odontolyticus wadsworthii S9 PR-13g Arthrobacter g + m Burkholderia sp. s + s Corynebacterium s + S32 sp.713182/2012 g Arthrobacter sp. s + m Necropsobacter g − s Ralstonia sp.A52 s + g Bifidobacterium s − m Necropsobacter s − s Staphylococcus s +bifidum rosorum sp. 3348O2 g Bifidobacterium s − m Janibacter sp. M3-5s + s Terrisporobacter g − breve g Bifidobacterium s − m Pseudomonas s −s Intestinibacter g + dentium syringae g Brevibacterium g + m Neisserias + s Peptoniphilaceae f − meningitidis g Corynebacterium g − mNeisseria flava s − s Tissierellia c − g Corynebacterium s + mArthrospira g + s Tissierellales o − diphtheriae g Corynebacterium s + mJohnsonella ignava s − s Veillonellales o − sp. g Cutibacterium s + mArthrospira s − s Cutibacterium g + acnes fusiformis g Mycobacteriaceaef + m Neisseria sp. CCUG s + s Spirochaetales o + 45853 g Rhodococcus g− m Prevotella micans s − s Deinococcus g + g Actinomycetales o + mCampylobacter s − s Lactococcus g + hyointestinalis g Rothia s + mNeisseria cinerea s − s Johnsonella g + dentocariosa g Mobiluncus g − mNeisseria s − s Deinococcaceae f + polysaccharea g Mobiluncus s + mAggregatibacter s − s Spirochaetes p + curtisii actinomycetemcomitans gMobiluncus s − m Selenomonas s + s Spirochaetia c + mulieris sputigena gMycoplasmatales o + m Trichococcus g + s Bacteroides sp. s − XB44A gMycoplasmataceae f + m Porphyromonas s + s Comamonas g − gulae gMethanobacteriales o − m Streptococcus s − s Neisseria sicca s +australis g Methanobacteriaceae f − m Olsenella uli s − s Kingellaoralis s g Methanobrevibacter g − m Capnocytophaga s − s Aggregatibacters − sp. oral strain aphrophilus A47ROY g Methanobrevibacter s − mGemella sp. oral s − s Aggregatibacter s + smithii strain C24KA segnis gGardnerella g − m Actinomyces sp. s − s Pasteurella g + oral strainB19SC g Globicatella g + m Actinomyces s − s Capnocytophaga g −cardiffensis g Globicatella s + m Prevotella sp. s − s Capnocytophagas + sanguinis Smarlab 121567 gingivalis g Sphingomonas g + m Eikenellasp. s + s Capnocytophaga s − MDA2346-4 ochracea g Bifidobacterium s + mVeillonella s + s Cyanobacteria p − pseudocatenulatum rodentium gPhyllobacterium g − m Capnocytophaga s − s Streptococcus s + sp. P2 oralstrain mutans P4P_12 g Bacteroides s − m Capnocytophaga s + s Vagococcusg − eggerthii leadbetteri g Alistipes s + m Mycoplasma sp. s + sTannerella s + putredinis M221-9 forsythia g Porphyromonas s − mPropionibacterium s − s Porphyromonas s − asaccharolytica acidifaciensendodontalis g Prevotella s + m Fusobacterium sp. s + s Prevotella s +buccalis CM55 intermedia g Alphaproteobacteria c + m Campylobacter sp.s + s Prevotella s − FOBRC14 nigrescens g Arcanobacterium s − mStenotrophomonas s + s Prevotella oris s − haemolyticum sp. NB3 gEuryarchaeota p − m Snodgrassella g − s Prevotella s − oulorum gVeillonella s − m Rothia sp. THG-T3 s + s Dolosigranulum g + parvula gMollicutes c + m Actinomyces sp. s − s Dolosigranulum s + canine oraltaxon pigrum 417 g Helcococcus g + n Bacteroidaceae f + s Acetitomaculumg − g Rhodobacteraceae f + n Bacteroides g + s Kingella g gXanthomonadaceae f + n Bacteroides s + s Terrisporobacter s +thetaiotaomicron glycolicus g Leptotrichia g + n Bacteroides s + sLeptotrichia s − uniformis buccalis g Rothia g + n Bacteroides s − sPorphyromonas s − vulgatus catoniae g Cutibacterium s − n Roseburia g +s Catonella g + avidum g Anaerococcus s − n Faecalibacterium s + sCatonella morbi s + hydrogenalis prausnitzii g Peptoniphilus s − nDesulfovibrio g − s Filifactor g + lacrimalis g Anaerococcus s − nDesulfovibrio sp. s − s Capnocytophaga s + lactolyticus granulosa gParvimonas s + n Herbaspirillum s − s Actinomyces s + micra seropedicaegeorgiae g Anaerococcus s + n Bacteroidetes p + s Actinomyces s +prevotii gerencseriae g Anaerococcus s + n Proteobacteria p + sActinomyces s − tetradius graevenitzii g Lactobacillus s + n Firmicutesp − s Acidobacteria p − johnsonii g Bilophila g − n Sarcina g − sPrevotella pallens s + g Bilophila s − n Streptococcaceae f − sCorynebacterium s − wadsworthia durum g Dermabacter g − n Streptococcusg − s Centipeda g − g Dermabacter s + n Clostridium g + s Centipeda s −hominis periodontii g Corynebacterium s − n Actinobacteria c − s Rothiasp. CCUG s + glucuronolyticum 25688 g Dialister s + n Lachnospira g + sMogibacterium s − pneumosintes pumilum g Stenotrophomonas g + nLachnospira s − s Pseudoflavonifractor s − pectinoschiza capillosus gSneathia s + n Betaproteobacteria c − s Leptotrichia s + sanguinegenstrevisanii g Sutterella s − n Deltaproteobacteria c − s Sphingobacteriiac − wadsworthensis g Bradyrhizobiaceae f + n Veillonellaceae f − sLeptotrichia s − wadei g Rhodospirillaceae f + n Clostridiaceae f − sLeptotrichia s + shahii g Sphingomonadaceae f + n Phascolarctobacteriumg + s Leptotrichia s − goodfellowii g Corynebacterium s + nPhascolarctobacterium s + s Tannerella g − argentoratense faecium gRothia s + n Lactobacillaceae f − s Sphingobacteriales o − mucilaginosag Butyrivibrio s − n Dorea s + s Chloroflexi p − crossotusformicigenerans g Abiotrophia g + n Sutterella g + s Acidobacteriia c −g Granulicatella s + n Pseudobutyrivibrio g + s Acidobacteriales o −adiacens g Abiotrophia s + n Bacteroides caccae s + s Megasphaera s +defectiva genomosp. C1 g Parabacteroides s − n Verrucomicrobiales o − sSelenomonas s + merdae genomosp. P5 g Bacteroides s + n Oxalobacteraceaef − s Actinomyces s − stercoris dentalis g Lautropia g + nBurkholderiales o − s Bacteroides s − nordii g Lactobacillus s + nCoriobacteriaceae f + s Capnocytophaga s − rhamnosus genosp. AHN8471 gFlavobacteriaceae f + n Eggerthella g + s Aggregatibacter g − g Pantoeag + n Coriobacteriia c + s Prevotella s + nanceiensis g Actinotignum s +n Coriobacteriales o + s Prevotella s − schaalii maculosa g Trueperellas + n Bacteroides s + s Actinomyces s + bernardiae acidifaciensmassiliensis g Corynebacterium s − n Blautia luti s + sLachnoanaerobaculum s + ulcerans saburreum g Facklamia sp. s + nBacteroides sp. s − s Bacteroides sp. s + 164-92 AR20 2_2_4 g Facklamiasp. s + n Bacteroides sp. s − s Gordonibacter s + 1440-97 AR29 pamelaeaeg Mesorhizobium g − n Collinsella g + s Bacteroides sp. s + DJF_B097 gPhyllobacteriaceae f − n Erysipelotrichaceae f + s Butyricimonas s +virosa g Hydrogenophilus g − n Roseburia s + s Leptotrichia s −intestinalis hongkongensis g Pseudomonadales o + n Bacteroidales o − sChitinophagaceae f − g Tessaracoccus g + n Rikenellaceae f + sRobinsoniella g + g Kluyvera s − n Shuttleworthia g + s Rhizobium sp. s− georgiana T45 g Collinsella s − n Clostridia c − s Oribacterium sp. s− aerofaciens oral taxon 078 g Campylobacter s + n Clostridiales o − sLeptotrichia sp. s − hominis oral taxon 225 g Bifidobacterium s + nPeptostreptococcaceae f + s Alloprevotellarava s + gallicum gComamonadaceae f + n Dorea g + s Capnocytophaga s + sp. oral taxon 338 gRhizobiaceae f + n Desulfovibrionaceae f + s Tannerella sp. s − oraltaxon HOT- 286 g Atopobium s + n Bacteroidia c − s Leptotrichia sp. s −vaginae PTE15 g Facklamia s + n Actinobacteria p − s Actinomyces sp. s −languida ICM41 g Slackia g − n Verrucomicrobiae c − s Oribacterium sp.s + CM12 g Gemella sp. 933- s + n Anaerostipes g − s Lachnoanaerobaculums + 88 sp. OBRC5-5 g Micrococcales o + n Desulfovibrionales o + sMoraxella sp. s + WB19-16 g Corynebacteriales o − n Oscillospiraceae f +s Lysinibacillus sp. s + SJ2SN2 g Brevibacteriaceae f + nFaecalibacterium g + s Pseudoflavonifractor g − g Dermabacteraceae f − nAlistipes g + s Neisseria oralis s + g Microbacteriaceae f − nAkkermansia s − s Actinomyces sp. s + muciniphila ph3 g Nocardiaceae f −n Hespellia g + s Rothia sp. THG- s − N7 g Bosea g + n Marvinbryantiag + s Candidatus g − Saccharimonas g Achromobacter s + n Roseburia s + sBacteroides sp. s − xylosoxidans inulinivorans J1511 g Mogibacterium g +n Blautia wexlerae s + s Tessaracoccus s − lapidicaptus g Aerococcus s −n Moryella g + s Fretibacterium g + christensenii g Eremococcus s + nErysipelotrichia c + s Candidatus g + coleocola Stoquefichus gLactobacillus s + n Erysipelotrichales o + s Pseudomonas s + fornicalisaeruginosa g Dorea s − n Clostridiales f XIII. f + s Enterobacter s +longicatena Incertae Sedis cloacae g Oligella g − n Blautia g + sVibrionaceae f − g Oligella s − n Roseburia sp. s − s Aeromonas g −urethralis 11SE39 g Enterobacterales o − n Bacteroides sp. s sRhodobacter g + D22 g Candidatus p + n Blautia faecis s + sOscillatoriales o − Saccharibacteria g Veillonella ratti s − nSelenomonadales o − s Leuconostoc g + g Lactobacillus s − nAcidaminococcaceae f + s Leuconostoc s − jensenii lactis gGranulicatella g + n Negativicutes c − s Lactobacillus s delbrueckii gFlavobacteriia c + n Streptococcus sp. s − s Bifidobacterium s − BS35aanimalis g Brucellaceae f + n Flavonifractor g + s Lactobacillus s +curvatus g Deinococcales o + n Sutterellaceae f + s Bacteroides s −ovatus g Burkholderiaceae f + n Anaerostipes sp. s + s Rahnella g +5_1_63FAA g Hydrogenophilales o − n Fusicatenibacter s + s Weissella g +saccharivorans g Solobacterium g + n Blautia sp. YHC-4 s − sRhodocyclaceae f − g Actinomyces s − n Fusicatenibacter g + sPseudomonas s − radingae monteilii g Actinomyces s + n Eisenbergiella g− s Leuconostocaceae f + turicensis g Xanthomonadales o − nEisenbergiella tayi s − s Aeromonadaceae f − g Catenibacterium g + nPeptoclostridium g + s Papillibacter g + g Globicatella s − nErysipelatoclostridium g + s Cupriavidus g + sulfidifaciens gAerosphaera g + n Campylobacter g − s Vibrionales o − g Aerosphaera s +n Campylobacter s + s Aeromonadales o − taetra concisus g Granulicatellas + n Achromobacter g − s Azospira g − elegans g Lactobacillus s + nFlavobacterium g + s Collinsella s + iners intestinalis g Finegoldia g +n Pseudomonas g − s Leuconostoc s − inhae g Anaeroglobus s − n Ralstoniapickettii s + s Planococcaceae f + geminatus g Megamonas g − nRhizobiales o − s Corynebacterium s − atypicum g Corynebacterium s + nRhizobium g + s Acidobacteriaceae f − mastitidis g Peptoniphilus g + nMesorhizobium s + s Rhodocyclales o − loti g Sphingobium g + nMethylobacterium g − s Corynebacterium s + ciconiae g Sneathia g + nMoraxellaceae f + s Pseudoclavibacter s + bifida g Thalassospira g + nAcinetobacter g − s Anaerolineales o − g Brevibacterium s + n Moraxellag + s Streptococcus sp. s + paucivorans S16-11 g Eremococcus g + nNeisseriaceae f + s Cloacibacterium s + rupense g Porphyromonadaceae f −n Neisseria g + s Aeromonas sp. s + B11 g Lactobacillus sp. s − nNeisseria mucosa s − s Acinetobacter sp. s + CR-609S 423D gMethanobacteria c − n Neisseria elongata s − s Paucibacter sp. s + 186 gVaribaculum s − n Neisseria macacae s − s Pseudomonas sp. s − cambriensea101-18-2 g Corynebacterium s − n Alcaligenaceae f − s Lactococcus sp.s + spheniscorum MH5-2 g Peptococcaceae f + n Enterobacteriaceae f + sPseudomonas sp. s + CBMAI 1177 g Aerococcaceae f + n Citrobacter g + sFinegoldia sp. s − BV3C29 g Carnobacteriaceae f − n Klebsiella g − sComamonas s + jiangduensis g Megasphaera s − n Kluyvera g − sPropionibacterium s − micronuciformis sp. KPL1844 g Veillonella s − nProteus g s Sutterella sp. 252 s + montpellierensis g Dialister sp. s −n Actinobacillus g + s Rahnella sp. s + E2_20 FB303 g Propionibacteriums + n Haemophilus s + s Hyphomicrobiaceae f − sp. MSP09A influenzae gStreptococcus s + n Haemophilus s − s Shewanella g + pasteurianusparainfluenzae g Flavobacteriales o + n Bacteroides fragilis s − sMyxococcales o − g Actinobaculum s − n Parabacteroides s + s Lysobacterg − massiliense distasonis g Propionimicrobium g − n Campylobacter s + sCaulobacter g + gracilis g Fusobacteriaceae f + n Porphyromonas g − sCaulobacter sp. s + g Rhodospirillales o + n Prevotella g − sPlanctomycetales o − g Rhodobacterales o + n Fusobacterium g − sPlanctomycetaceae f − g Sphingomonadales o + n Fusobacterium s + sElizabethkingia s − nucleatum meningoseptica g Bacteroides s − nFusobacterium s − s Brevundimonas s + massiliensis periodonticumdiminuta g Hydrogenophilaceae f − n Megasphaera g + s Xanthomonas s −campestris g Neisseriales o + n Chromatiaceae f − s Acetobacteraceae f −g Subdoligranulum s + n Rhodopseudomonas g + s Acinetobacter s −variabile baumannii g Bifidobacterium s − n Gammaproteobacteria c + sMoraxella s + longum nonliquefaciens g Dialister invisus s − nPeptostreptococcus g + s Psychrobacter g + g Peptoniphilus s − nFinegoldia magna s − s Zymomonas g + sp. 2002-38328 g Peptoniphilus s +n Peptostreptococcus s + s Klebsiella s + sp. 2002- anaerobiuspneumoniae 2300004 g Actinomyces sp. s + n Micrococcaceae f − sAeromonas s − 2002-2301122 salmonicida g Sutterella s − n Micrococcus g− s Photobacterium g − stercoricanis g Fastidiosipila g + n Micrococcusluteus s + s Geobacillus s + stearothermophilus g Helcococcus s − nStaphylococcus g + s Alloiococcus s + sueciensis otitis g Bacteroidessp. s − n Staphylococcus s + s Nocardioides g − 35AE37 aureus gPseudoclavibacter g − n Staphylococcus s + s Pseudonocardia g +epidermidis g Oribacterium g + n Staphylococcus s + s Streptomyces g +simulans g Porphyromonas s − n Deinococcus- p + s Gordonia g + uenonisThermus g Roseburia s + n Streptococcus s − s Gordonia terrae s −hominis gordonii g Dialister s + n Streptococcus s + s Brochothrix g +propionicifaciens thermophilus g Bacteroides s + n Streptococcus s − sSolanaceae f + plebeius parasanguinis g Bacteroides s − n Streptococcuss + s Basidiomycota p + coprocola dysgalactiae g Shinella g + nEnterococcus g + s Acidovorax g + g Alistipes shahii s + n Lactococcuslactis s − s Sphingobium s + yanoikuyae g Pelomonas g + n Aerococcus g +s Micromonosporaceae f + g Peptostreptococcus s − n Aerococcus urinaes + s Sphingobacterium g + stomatis g Peptoniphilus s − n Atopobium g +s Turicella otitidis s + sp. gpac018A g Bacteroides sp. s − n Atopobiums − s Rhodoplanes g − XB12B minutum g Parabacteroides g − n Bacillales o− s Cutibacterium s + granulosum g Barnesiella g − n Bacillus g − sMicrobacterium s − lacticum g Lysinibacillus g − n Lysinibacillus s + sExiguobacterium g − sphaericus g Howardella g − n Clostridioides s + sDietzia g + difficile g Citrobacter sp. s + n Lactobacillus g − sAcinetobacter s − BW4 radioresistens g Streptococcus s + n Lactobacilluss + s Paenibacillus g + sp. 11aTha1 plantarum g Methylobacterium s + nLactobacillus s + s Pseudomonas s − sp. CBMB45 gasseri citronellolis gPrevotella amnii s + n Lactobacillus s − s Malassezia g + salivarius gAlloscardovia g − n Lactobacillus s − s Nesterenkonia g + vaginalis gAlloscardovia s − n Actinomyces g − s Dermacoccus g + omnicolens gJonquetella g − n Arthrobacter g − s Pseudoxanthomonas s + japonensis gJonquetella s − n Bifidobacterium g − s Brevundimonas s − anthropisubvibrioides g Pelomonas s + n Brevibacterium g − s Malassezia s +aquatica restricta g Megamonas s − n Corynebacterium s − sPseudoxanthomonas g + funiformis diphtheriae g Alistipes sp. s + nCorynebacterium s − s Kineosporiaceae f + EBA6-25cl2 sp. g Bacteroidessp. s − n Propionibacterium g − s Sphingobacteriaceae f − EBA5-17 gParaprevotella s − n Cutibacterium s + s Acidimicrobiia c − clara acnesg Serratia s − n Mycobacteriaceae f + s Acidimicrobiales o −nematodiphila g Anaerobacillus s + n Mycobacterium g + s Rubrobacteria c− alkalidiazotrophicus g Alistipes sp. s + n Rhodococcus g + sMicromonosporales o + NML05A004 g Brevibacterium s − n Rhodococcus s + sFrankiales o − ravenspurgense erythropolis g Dialister s + nActinomycetales o − s Promicromonosporaceae f + succinatiphilus gBarnesiella s − n Rothia s − s Intrasporangiaceae f − intestinihominisdentocariosa g Parasutterella s − n Actinomycetaceae f − s Gordoniaceaef + excrementihominis g Porphyromonas s − n Mobiluncus g + s Dietziaceaef + bennonis g Cloacibacterium g − n Mobiluncus s + sGeodermatophilaceae f − mulieris g Gemella s + n Methanobacteriales o −s Marmoricola g − asaccharolytica g Peptoniphilus s + nMethanobacteriaceae f − s Marmoricola s − duerdenii aurantiacus gPeptoniphilus s − n Methanobrevibacter g − s Cytophagaceae f −koenoeneniae g Murdochiella s − n Methanobrevibacter s − s Hymenobacterg − asaccharolytica smithii g Synergistetes p − n Gardnerella g + sXanthomonas s + gardneri g Cloacibacillus g − n Gardnerella s + sFrigoribacterium g + vaginalis g Cloacibacillus s − n Peptococcus g + sAcinetobacter s − evryensis ursingii g Atopobium sp. s + n Peptococcusniger s + s Roseomonas g − F0209 g Clostridiales f f + n Halomonas g − sGeobacillus g + XI. Incertae Sedis g Tenericutes p + n Solanales o + sCorynebacterium s − capitovis g Hydrogenophilus s − n Sphingomonas g − sVerrucomicrobia f − islandicus subdivision 3 g Corynebacterium s + nPhyllobacterium g − s Alteromonadales o + freiburgense g Delftialacustris s − n Bacteroides s s Gemmatimonadetes p + eggerthii gBrevibacterium s − n Alistipes putredinis s − s Turicella g +massiliense g Paraprevotella g − n Porphyromonas s + s Dermacoccaceaef + asaccharolytica g Parasutterella g − n Prevotella bivia s − sMassilia g + asaccharolytica g Enterorhabdus g + n Prevotella buccaliss + s Microbacterium s + sp. absalar g Negativicoccus s − n Prevotelladisiens s + s Cellulosimicrobium g − succinicivorans g Bacteroides s + nCronobacter s + s Malasseziales o + clarus sakazakii g Sutterella sp.s + n Alphaproteobacteria c − s Aurantimonas g + YIT 12072 gBifidobacterium s − n Halomonadaceae f − s Listeriaceae f +kashiwanohense g Porphyromonas s + n Euryarchaeota p − sPaenibacillaceae f + sp. 2024b g Lautropia sp. s + n Gemella s − sDermacoccus sp. s + TeTO morbillorum Ellin185 g Pyramidobacter g − nRhizobium etli s + s Thermomicrobia c − g Pseudoclavibacter s − nVeillonella g − s Thermomicrobiales o + sp. Timone g Anaerostipes s + nEpsilonproteobacteria c − s Planctomycetes p − hadrus g Synergistia c −n Bifidobacteriaceae f − s Planctomycetia c − g Synergistales o − nPropionibacteriaceae f − s Skermanella g − g Synergistaceae f − nRhodobacteraceae f − s Roseomonas s − cervicalis g Klebsiella sp. s − nBurkholderia g − s Solirubrobacter g − B12 g Anaerosporobacter g + nXanthomonadaceae f − s Gemmatimonadetes c + g Lactobacillus sp. s + nFusobacteria p + s Jeotgalicoccus g + BL302 g Ochrobactrum s − nLeptotrichia g − s Salinibacterium g − sp. SCTS14 g Anaerostipes sp. s −n Rothia g − s Staphylococcus s + 3_2_56FAA equorum g Campylobacter s +n Actinomyces neuii s + s Shewanellaceae f + sp. 10_1_50 g Lactobacillussp. s + n Cutibacterium s − s Rubellimicrobium g + 7_1_47FAA avidum gPeptoniphilus s + n Propionimicrobium s − s Sphingomonas s + sp. oraltaxon lymphophilum oligophenolica 836 g Veillonella sp. s + nAnaerococcus s − s Elizabethkingia g − oral taxon 780 hydrogenalis gCorynebacterium s − n Peptoniphilus s + s Solirubrobacteraceae f − canislacrimalis g Bilophila sp. s − n Anaerococcus s + s Dietzia cinnamea s −4_1_30 lactolyticus g Peptoniphilus s + n Parvimonas micra s − sXanthobacteraceae f − sp. JCM 8143 g Corynebacterium s − n Anaerococcuss + s Wautersiella g + sp. NML96- tetradius 0085 g Corynebacterium s − nAnaerococcus s + s Empedobacter s + sp. NML 97- vaginalis falsenii 0186g Actinomyces sp. s + n Microbacterium g − s Patulibacter g − oral taxon175 g Peptoniphilus s − n Streptophyta p + s Nubsella s − sp. oral taxonzeaxanthinifaciens 375 g Bacteroides s − n Bilophila g + s Skermanella s− stercorirosoris aerolata g Blautia stercoris s + n Bilophila s + sAcinetobacter sp. s − wadsworthia RBE2CD-76 g Peptoniphilus s + nDermabacter s + s Exobasidiomycetes c + sp. 1-14 hominis g Peptoniphiluss − n Corynebacterium s − s Stenotrophomonas s − sp. 7-2glucuronolyticum pavanii g Stenotrophomonas s + n Dialister g − sMycobacterium s + sp. KITS-1 sp. 18 GUW g Shinella sp. s + n Dialisters + s Pseudolabrys g + DR33 pneumosintes g Bacteroides sp. s − nStenotrophomonas g − s Bacillus safensis s + SLC1-38 g Lactobacillus sp.s + n Brevundimonas g − s Nubsella g − Akhmro1 g Stenotrophomonas s + nBradyrhizobiaceae f − s Jeotgalicoccus s + sp. C-S-TSA3 nanhaiensis gActinomyces sp. s − n Rhodospirillaceae f + s Dermacoccus sp. s − ICM54SST-20 g Bifidobacterium s + n Sphingomonadaceae f − s Flavobacterium s− sp. MSX5B sp. CS43 g Fusobacterium s − n Brachybacterium g + sMoraxella sp. s + sp. ACB2 BBN2P-02d g Fusobacterium s − n Rothia s + sSolirubrobacterales o − sp. AS2 mucilaginosa g Fusobacterium s + nAbiotrophia g + s Acinetobacter sp. s + sp. CM21 T133 g Veillonella sp.s + n Granulicatella s − s Kineosporiales o + AS16 adiacens gAnaerococcus s + n Abiotrophia s + s Iamiaceae f − sp. 8404299 defectivag Anaerococcus s + n Bacteroides s + s Rummeliibacillus g + sp. 8405254stercoris g Anaerococcus s + n Lautropia g + s Pseudomonas s − sp.9401487 baetica g Anaerococcus s + n Lactobacillus s + s Photobacteriums − provencensis crispatus sp. CAIM 866 g Bradyrhizobium s + n Ralstoniag − s Chryseomicrobium s − sp. 68A4SAPT imtechense g Sphingomonas s + nFlavobacteriaceae f + s Brevundimonas s + sp. 24T sp. JW23.4a gEnterococcus sp. s + n Actinobacillus s + s Pseudomonas sp. s + SI-4porcinus DQ-01 g Delftia sp. BN- s − n Meiothermus s + s Malasseziaceaef + SKY3 silvanus g Methylobacterium s + n Pantoea g − s Microbacteriums − sp. RK-2008-1 sp. PCRB024 g Enterococcus sp. s − n Anaerococcus s −s Cytophagia c − C6I11 octavius g Staphylococcus s − n Kocuria g + sCytophagales o − sp. C9I2 g Enterobacter sp. s + n Chryseobacterium g +s Chryseomicrobium g − BS2-1 g Megasphaera sp. s + n Bergeyella g + sStaphylococcus s − UPII 199-6 sp. C-D-MA2 g Megasphaera sp. s + nCorynebacterium s − s Pseudomonas sp. s + UPII 135-E ulcerans KVS86 gCorynebacterium s − n Meiothermus g + s Pseudomonas sp. s −epidermidicanis PKG89 g Trueperella g + n Actinomyces s + s Massilia sp.MA5-1 s − europaeus g Mesorhizobium s + n Facklamia g + s Granulicella g− sp. mat916 g Coprobacter s − n Facklamia sp. 164- s + s Micrococcussp. s + fastidiosus 92 WB18-01 g Actinomyces sp. s + n Thermales o + sDietzia sp. ISA13 s + ICM58 g Peptoniphilus s + n Phyllobacteriaceae f +s Brochothrix sp. s + sp. BV3AC2 MVP25 g Megasphaera sp. s + nHydrogenophilus g + s Sphingomonas s − BV3C16-1 sp. PDD-26b-16 gAnaerococcus s + n Kocuria rhizophila s − s Sphingomonas s − sp. PH9 sp.KOPRI 25661 g Leptotrichiaceae f + n Pseudomonadales o + sFerruginibacter g + g Faecalibacterium s + n Campylobacteraceae f − sSphingobacterium s − sp. canine oral sp. HTc4-a taxon 147 g Murdochiellag − n Tessaracoccus g − s Amnibacterium g + g Lachnoanaerobaculum g + nKluyvera georgiana s − s Comamonas sp.C s − HM_AF10 g Streptococcus s +n Collinsella s + s Massilia sp. hp37 s + sp. GMD6S aerofaciens gVaribaculum sp. s + n Campylobacter s + s Defluviimonas g − CCUG 61255hominis g Dermabacter sp. s − n Actinobaculum g − s Ochrobactrum s −HFH0086 sp. LC498 g Propionibacterium s − n Caulobacteraceae f − sGaiellales o − sp. KPL2005 g Actinomyces sp. s + n Halomonas s − sGaiellaceae f − S4-C9 pacifica g Atopobium sp. s + n Bacillus s − sAureimonas s + MVA9 pseudofirmus phyllosphaerae g Atopobium sp. s + nComamonadaceae f − s Stenotrophomonas s − S3MV24 sp. I_63- LFP1A9B1 gAtopobium sp. s + n Delftia g − s Salinibacterium s − S3MV26 sp.MDT1-9-1 g Dialister sp. S4- s + n Enterococcaceae f + s Blastocatella g− 23 g Gardnerella sp. s − n Rhizobiaceae f + s Acinetobacter sp. s +S3PF20 HD5.2 g Prevotella sp. s + n Atopobium vaginae s + s Rhizobiumsp. s + S4-10 10II g Corynebacterium s − n Facklamia s − s Bosea sp.B0.09- s − frankenforstense languida 49 g Megasphaera s + n Gemella sp.933-88 s + s Brevibacterium s + massiliensis 88 sp. MBTD_CMFRI_Bro2 gStreptococcus s − n Bifidobacteriales o − s Exiguobacterium s − sp. sp.icr3 2011_Oral_MS_A3 g Veillonella sp. s − n Micrococcales o − sJatrophihabitans g − 2011_Oral_VSA_D3 g Alloprevotella g + nPropionibacteriales o − s Chryseobacterium s − sp. R31 g Peptoniphiluss + n Brevibacteriaceae f − s Phenylobacterium g + sp. DNF00192 gDialister sp. s + n Microbacteriaceae f + s Myxococcaceae f − S7MSR5 gIntestinimonas s + n Nocardiaceae f + s Polyangiaceae f −butyriciproducens g Lactobacillus sp. s + n Bosea g + s Simonsiella g +C30An8 g Anaerococcus s − n Achromobacter s − s Simonsiella s + sp. S887-3 xylosoxidans muelleri g Anaerococcus s − n Mogibacterium g + sSpirosoma g − sp. S8 F2 g Finegoldia sp. S8 s + n Propionibacterium s −s Aquaspirillum g + F7 sp. V07/12348 g Porphyromonas s + n Aerococcuss + s Pseudomonas s + sp. S8 86-12 christensenii fluorescens gActinomyces sp. s − n Eremococcus s + s Moraxella sp. s − S9 PR-21coleocola g Anaerococcus s + n Lactobacillus s + s Acidiphilium g − sp.S9 PR-16 fornicalis g Anaerococcus s + n Dorea longicatena s + s Pantoeas + sp. S9 PR-5 agglomerans g Finegoldia sp. S9 s + n Staphylococcaceaef + s Pasteurella s + AA1-5 multocida g Murdochiella sp. s − nEnterobacterales o + s Erythrobacter g − S9 PR-10 g Olsenella sp. S9 s −n Aquabacterium g − s Dermacoccus s + HS-6 nishinomiyaensis gPeptococcus sp. s + n Aquabacterium sp. s − s Streptococcus s − S9 Pr-12Aqua2 pyogenes g Peptoniphilus s − n Candidatus p + s Planococcus g +sp. S9 PR-13 Saccharibacteria g Coprobacter g − n Solobacterium s − sBacillus cereus s + moorei g Corynebacterium s − n Lactobacillus s − sCellulomonas g − sp. jensenii 713182/2012 g Atopobium s − nGranulicatella g + s Cellulosimicrobium s − deltae cellulans gHelcococcus s − n Flavobacteriia c + s Actinomadura g − seattlensis gSenegalimassilia g + n Deinococcales o + s Capnocytophaga s + canimorsusg Peptoniphilus s + n Methylobacteriaceae f − s Alicyclobacillus g − sp.DNF00840 g Romboutsia g − n Burkholderiaceae f − s Filifactor villosuss + g Veillonella s − n Hydrogenophilales o + s Methylocystaceae f −seminalis g Terrisporobacter g + n Solobacterium g − s Agromyces g − gIntestinibacter g + n Pseudomonas s − s Gordonia sputi s − brenneri gPeptoniphilaceae f − n Actinomyces s + s Porphyromonas s − radingaecangingivalis g Atopobiaceae f − n Olsenella g + s Porphyromonas s −canoris g Akkermansiaceae f + n Chromatiales o − s Kocuria kristinae s +g Tissierellia c − n Xanthomonadales o − s Brachybacterium s + faecium gTissierellales o − n Oceanospirillales o − s Beijerinckiaceae f − gVeillonellales o − n Pseudomonadaceae f − s Devosia g + gSelenomonadaceae f + n Catenibacterium g + s Pedomicrobium g + gTannerellaceae f + n Aerosphaera g − s Bibersteinia s + trehalosi gSpirochaetales o + n Aerosphaera taetra s − s Actinoplanes s +auranticolor g Deinococcus g + n Granulicatella s + s Kineosporia g +elegans g Deinococcaceae f + n Finegoldia g − s Polaromonas g − gSpirochaetes p − n Anoxybacillus g + s Friedmanniella g − g Spirochaetiac − n Anaeroglobus g − s Janib acteg g − g Comamonas g − n Anaeroglobuss − s Nakamurella g − geminatus g Neisseria s + n Corynebacterium s − sAmaricoccus g − flavescens mastitidis g Aggregatibacter s − nPeptoniphilus g − s Kytococcus g + aphrophilus g Aggregatibacter s − nGallicola g − s Aquamicrobium g − segnis g Capnocytophaga g + nNovosphingobium g − s Planomicrobium s − alkanoclasticum gCapnocytophaga s + n Anaerococcus g + s Duganella g − gingivalis gCyanobacteria p + n Thalassospira g − s Fusibacter g + g Streptococcus s− n Brevibacterium s − s Craurococcus g − mutans paucivorans g Atopobiums − n Eremococcus g + s Chitinophaga g + rimae g Lactobacillus s − nPorphyromonadaceae f − s Friedmanniella s − paracasei spumicola gActinomyces s + n Prevotellaceae f − s Microbacterium s − viscosusoxydans g Bifidobacterium s − n Lactobacillus sp. s − s Luteimonas g +adolescentis CR-609S g Anaeroplasma g + n Facklamia hominis s + sVirgibacillus g + g Asteroleplasma g + n Methanobacteria c − sPedobacter g + g Methanosphaera g − n Varibaculum g + s Rubrobacteraleso − g Methanosphaera s − n Varibaculum s + s Rubrobacteraceae f −stadtmanae cambriense g Vagococcus g − n Corynebacterium s − sCellulomonadaceae f − spheniscorum g Prevotella s − n Bacillaceae f − sBacillus flexus s − nigrescens g Prevotella oris s − n Aerococcaceae f +s Modestobacter g − g Dolosigranulum g − n Carnobacteriaceae f + sModestobacter s − multiseptatus g Dolosigranulum s − n Veillonella s − sAquamicrobium s − pigrum montpellierensis lusatiense g Acetitomaculum g− n Thermaceae f + s Sphingomonas s − aquatilis g Mogibacterium s + nDeinococci c + s Ochrobactrum s + timidum tritici g Terrisporobacter s +n Dialister sp. E2_20 s + s Leifsonia g − glycolicus g Veillonella s − nPropionibacterium s − s Ornithinimicrobium g + dispar sp. MSP09A gSucciniclasticum g − n Flavobacteriales o + s Candidatus g −Xiphinematobacter g Bifidobacterium s + n Actinobaculum s − s Knoellia g− sp. massiliense g Corynebacterium s + n Propionimicrobium g − sConchiformibius s + matruchotii steedae g Actinomyces s + nFusobacteriia c + s Planomicrobium g − graevenitzii g Corynebacteriums + n Fusobacteriales o + s Oerskovia g + durum g Thermoanaerobacteraleso − n Fusobacteriaceae f − s Microvirga g − g Streptococcus s − nRhodospiriilales o + s Alicyclobacillaceae f − peroris g Mannheimia g +n Rhodobacterales o − s Haematobacter s − massiliensis g Alloprevoteilas + n Sphingomonadales o − s Albidovulum s + tannerae inexpectatum gCentipeda g + n Caulobacterales o − s Alkanindiges s − illinoisensis gEggerthella lenta s − n Bacteroides s − s Flammeovirgaceae f −massiliensis g Catenibacterium s + n Hydrogenophilaceae f + s Ralstoniasp. s + mitsuokai CCUG 46389 g Pseudoflavonifractor s − n Neisserialeso + s Albidovulum g + capillosus g Anaerovorax g − n Campylobacterales o− s Bdellovibrionales o − g Parasporobacterium g − n Alistipesfinegoldii s + s Bergeyella sp. s + h1971d g Sphingobacteriia c + nBifidobacterium s − s Cellulomonas s + longum denverensis gAnaerotruncus s − n Dialister invisus s + s Serinicoccus g − colihominisg Anaeroplasmatales o + n Peptoniphilus sp. s − s Paucibacter s −2002-38328 toxinivorans g Anaeroplasmataceae f + n Peptoniphilus sp. s +s Chthoniobacter g + 2002-2300004 g Sphingobacteriales o + n Curvibactergracilis s + s Phyllobacterium s + trifolii g Chloroflexi p + n Bacillussp. T41 s + s Sphingomonas s − yunnanensis g Thermodesulfobiaceae f − nSutterella s + s Polaromonas s − stercoricanis aquatica g Megasphaera s− n Fastidiosipila s + s Conchiformibius g − genomosp. C1 sanguinis gActinomyces s − n Bacteroides sp. s + s Methylobacterium s + dentalis35AE37 sp. PB142 g Bacteroides s − n Pseudoclavibacter g + s Candidatusg + nordii Alysiosphaera g Anaerolineae c + n Oribacterium g − sAltererythrobacter g − g Streptococcus s − n Curvibacter g + s Bacilluss − dentirousetti pocheonensis g Parabacteroides s − n Porphyromonas s +s Belnapia g − johnsonii uenonis g Howardella s − n Odoribacter g + sHaematobacter g − ureilytica g Opitutae c + n Corynebacterium s + sPorphyromonas s − sp. 2300500 crevioricanis g Puniceicoccales o + nBacteroides s + s Flavobacterium s + salyersiae ceti g Desulfovibrio sp.s + n Roseburia faecis s + s Flavisolibacter g − 3_1_syn3 g Bacteroidessp. s − n Dialister s − s Nocardioides s + 2_2_4 propionicifaciensdaphniae g Gordonibacter s + n Bacteroides s − s Aureimonas g −pamelaeae coprocola g Atopobium sp. s + n Shinella g + s Microbacteriums − DMCT15023 lacus g Blautia s − n Parabacteroides s − sChryseobacterium s + glucerasea goldsteinii haifense g Bacteroides sp. s− n Alistipes shahii s + s Novosphingobium s + DJF_B097 panipatense gButyricimonas s + n Pelomonas g − s Nocardioides s + virosa mesophilus gParabacteroides s + n Peptostreptococcus s − s Microlunatus s − gordoniistomatis aurantiacus g Robinsoniella g + n Bergeyella sp. AF14 s − sLuteimonas s + aestuarii g Bifidobacterium s + n Peptoniphilus sp. s + sSaccharibacillus g + stercoris gpac018A g Rhizobium sp. s − nPeptoniphilus sp. s − s Singulisphaera g − T45 gpac148 g Gordonibacterg + n Anoxybacillus sp. s + s Iamia g − HT14 g Slackia sp. s − nBarnesiella g − s Duganella sp. 5B s − NATTS g Prevotella sp. s + nLysinibacillus g + s Mycobacterium s − WAL 2039G sp. KNUC297 gCapnocytophaga s + n Citrobacter sp. s + s Pseudomonas sp. s − sp. oraltaxon BW4 KNUC378 329 g Parvimonas sp. s + n Pseudomonas sp. s + sNitrososphaera g − oral taxon 393 G1116 g Caldicoprobacteraceae f + nAnaerococcus s + s Brevibacterium s + murdochii pityocampae gActinomyces sp. s + n Cronobacter g + s Clostridiales f f + ICM47 XII.Incertae Sedis g Oribacterium sp. s + n Acinetobacter sp. s − sClostridiales f f − CM12 RBE2CD-114 XIX. Incertae Sedis g Oribacteriumsp. s − n Streptococcus sp. s − s Dietzia lutea s + OBRC12 11aTha1 gLachnoanaerobaculum s + n Methylobacterium s + s Sphingomonas s + sp.sp. CBMB45 sp. CS81 OBRC5-5 g Moraxella sp. s + n Rhizobium sp. sc-w s +s Chryseobacterium s − WB19-16 sp. Y1D g Lysinibacillus s − nVeillonella rogosae s + s Spirosoma rigui s − sp. SJ2SN2 gPseudoflavonifractor g − n Jonquetella g + s Pedobacter sp. s + DL5 gFusobacterium s + n Jonquetella s + s Exiguobacterium s + sp. OBRC1anthropi sp. YS1 g Dielma s + n Pelomonas s − s Neisseria s − fastidiosaaquatica wadsworthii g Veillonella sp. s + n Alistipes sp. EBA6- s + sVariovorax sp. s + JL-2 25Cl2 IMER-B2-7 g Actinomyces sp. s − nBacteroides sp. s + s Thaumarchaeota p − ph3 EBA5-17 gPhascolarctobacterium s − n Paraprevotella s + s Pseudomonas sp. s + sp.377 clara StFRB280 g Parabacteroides s + n Oscillibacter g + sJeotgalicoccus sp. s + faecis AD9 g Veillonella sp. s + n Anaerobacilluss + s Nocardioides s − 2011_Oral_VSA_B12 alkalidiazotrophicusginsengagri g Veillonella sp. s + n Rhodopseudomonas s s Leifsonia s −2011_Oral_VSA_C9 boonkerdii psychrotolerans g Rothia sp. THG- s + nChryseobacterium s − s Cellulosimicrobium s − N7 sp. MH28 sp. 143-1 gActinomyces sp. s − n Alistipes sp. s − s Sphingomonas sp. s − S6-Spd3NML05A004 Z1-YC6841 g Bacteroides sp. s − n Barnesiella s − sAcinetobacter sp. s + J1511 intestinihominis S2(2009) g Tessaracoccuss + n Parasutterella s + s Jeotgalicoccus s − lapidicaptusexcrementihominis aerolatus g Robinsoniella s − n Pseudomonas sp. s + sChryseobacterium s + sp. KNHs210 GmFRB023 sp. sptzw36 g Candidatus g − nPorphyromonas s − s Pseudorhodoferax g + Stoquefichus bennonis g Dielmag + n Cloacibacterium g − s Burkholderia sp. s − S32 g Alistipes inops s− n Bosea sp. s + s Pseudomonas sp. s − BIWAKO-01 PcFRB068 g Coprobacters − n Peptoniphilus s + s Pseudomonas sp. s − secundus duerdeniiPcFRB100 g [Collinsella] s + n Synergistetes p + s Psychrobacter s −massiliensis sanguinis g Bifidobacterium s − n Clostridiales f XI. f − sChryseobacterium s + choerinum Incertae Sedis sp. MC10-6 g Helicobacterg + n Parvimonas g + s Planomicrobium s − sp. TPD46 g Enterobacter s − nHydrogenophilus s + s Comamonas sp. s + cloacae islandicus RV_F08_22d gHafnia g + n Corynebacterium s + s Exiguobacterium s + freiburgense sp.Sh3 g Hafnia alvei s + n Delftia lacustris s + s Mo destobacter s − sp.R-36506 g Klebsiella s + n Novosphingobium s − s Brevundimonas s −oxytoca sediminicola sp. a001-4 g Morganella g + n Brevibacterium s + sPsychrobacter sp. s − massiliense b110-1 g Morganella s + nParaprevotella g + s Brevibacterium s + morganii sp. A9C6 g Aeromonasg + n Parasutterella g + s Nitriliruptoria c − g Roseburia s − nPhyllobacterium s − s Euzebyales o − cecicola sp. T50 g Fusobacteriums + n Negativicoccus s − s Euzebyaceae f − varium succinicivorans gFusobacterium s + n Porphyromonas sp. s − s Euzebya g − necrogenes 2026g Fusobacterium s − n Lautropia sp. TeTO s + s Methylobacterium s +ulcerans sp. AMS64 g Desulfovibrio s − n Pseudoclavibacter s + sAcinetobacter sp. s − desulfuricans sp. Timone C-S-PDA7 gAcidaminococcus s − n Synergistia c + s Micrococcus sp. s − fermentansM12-2-2 g Oscillatoriales o + n Synergistales o + s Chryseobacterium s −sp. bk_19 g Leuconostoc g + n Synergistaceae f + s Rhodococcus sp. s −MARG10 g Leuconostoc s + n Anaerosporobacter g + s Rhodococcus sp. s −mesenteroides P52 g Leuconostoc s + n Ochrobactrum sp. s + sBlastococcus sp. s − lactis SCTS14 FXJ6.383 g Pediococcus g − nLactobacillus sp. s − s Mesorhizobium s + 7_1_47FAA sp. RE 62 gClostridium s − n Peptoniphilus sp. s + s Knoellia sp. s − ventriculioral taxon 836 BA3(2011) g Blautia hansenii s − n Veillonella sp. orals + s Nocardioides sp. s − taxon 780 BA32(2011) g Streptococcus s − nMicrobacterium s − s Bacillus sp. s + equinus yannicii CBMAI 1158 gEnterococcus s − n Corynebacterium s + s Rhizobium s + hirae canisskierniewicense g Blautia s + n Tessaracoccus sp. s − s Shewanella sp.s + coccoides SL014B-79A 8113 g Romboutsia s + n Bilophila sp. s − sKocuria sp. s − lituseburensis 4_1_30 FXJ6.339 g Weissella s − nPeptoniphilus sp. s + s Exiguobacterium s − confusa JCM 8143 sp. IT2 gLactobacillus s + n Anaerobacillus g + s Arthrobacter sp. s −delbrueckii LM27(2011) g Lactobacillus s − n Corynebacterium s + sStaphylococcus s − animalis sp. NML 97-0186 sp. C5I16 g Lactobacilluss + n Actinomyces sp. s + s Arthrobacter sp. s − ruminis oral taxon 175NIO-1057 g Bifidobacterium s − n Peptococcus sp. s + s Frigoribacteriums − catenulatum oral taxon 168 sp. PDD-31b-8 g Eubacterium g − nStreptococcus sp. s − s Methylobacterium s − oral taxon G59 sp. PDD-23b-14 g Eubacterium s − n Brevundimonas sp. s + s Pseudomonas sp. s +limosum V3M6 PDD-31b-4 g Propionibacterium s − n Peptoniphilus coxii s +s Rhodococcus sp. s + freudenreichii PDD-31b-7 g Acholeplasmataceae f +n Herbaspirillum s + s Stenotrophomonas s − huttiense sp. PDD-33b-8 gAcholeplasma g + n Peptoniphilus sp. s − s Sphingobacterium s − 1-14 sp.TB1 g Sporomusa g − n Peptoniphilus sp. s − s Moraxella sp. s + 7-2 1967g Epulopiscium g + n Ralstonia sp. s − s Nitrososphaerales o −S2.MAC.005 g Carnobacterium g − n Stenotrophomonas s + sNitrososphaeraceae f − sp. KITS-1 g Carnobacterium s − n Negativicoccusg + s Photobacterium s − maltaromaticum sp. squidInt_04 g Synergistesg + n Shinella sp. DR33 s + s Erythrobacter sp. s + DHXJ15 gBifidobacterium s + n Bacteroides sp. s + s Deinococcus sp. s − animalisSLC1-38 MN4-8 g Lactobacillus s − n Lactobacillus sp. s − s Bacteroidessp. s − curvatus Akhmr01 canine oral taxon 040 g Bacteroides s − nStenotrophomonas s − s Aquaspirillum sp. s + ovatus sp. C-S-TSA3 canineoral taxon 091 g Rikenella g + n Acinetobacter sp. s − s Streptococcussp. s − RE 51 canine oral taxon 279 g Rikenella s + n Veillonella sp. s− s Peptococcus sp. s − microfusus CM60 canine oral taxon 344 gCellulosilyticum s − n Actinomyces sp. s + s Stenotrophomonas s +lentocellum ICM54 sp. Z2-S2 g Brachyspira g + n Fusobacterium sp. s + sDeinococcus s − ACB2 antarcticus g Brachyspira s + n Fusobacterium sp.s + s Hymenobacter s − aalborgi AS2 sp. MIC2056 g Bacteroides sp. s + nFusobacterium sp. s + s Knoellia sp. Zs20 s − CM21 g Blautia producta s− n Veillonella sp. s − s Oerskovia sp. s + AS16 Tibet-YD4604-5 gLactobacillus s + n Veillonella sp. s + s Staphylococcus s − kefiriMSA12 sp. 335602 g Rahnella g + n Anaerococcus sp. s − s Novosphingobiums + 8404299 sp. iMX1 g Citrobacter s + n Anaerococcus sp. s + sVariovorax sp. s + amalonaticus 8405254 MM43NoV g Acetivibrio g − nAnaerococcus sp. s − s Janibacter sp. s + 9401487 IARI-RP17 gSporobacter g + n Anaerococcus s − s Kytococcus sp. s + provencensisYB227 g Pseudobutyrivibrio s + n Bradyrhizobium s − s Chromobacteriaceaef + ruminis sp. 68A4SAPT g Weissella g − n Sphingomonas sp. s − sLuteococcus g − 24T g Weissella s + n Enterococcus sp. s + s Sorangium g− hellenica SI-4 g Sporomusa s − n Bosea sp. R-46060 s + s Pedomicrobiums + sphaeroides ferrugineum g Mitsuokella g − n Delftia sp. BN- s − sFriedmanniella s − SKY3 sp. Ellin171 g Mitsuokella s + n Staphylococcussp. s + s Alkanindiges g − multacida WB18-16 g Enterococcus s − nMethylobacterium s − s Rheinheimera sp. s + durans sp. RK-2008-1 G3DM-27g Blautia s − n Staphylococcus sp. s − s Rhodococcus sp. s −hydrogenotrophica C9I2 CO56 g Methanobrevibacter s − n Brachybacteriums + s Actinomyces sp. s − sp. sp. NIO-27 canine oral taxon 374 nMegasphaera sp. s + s Ornithinimicrobium s + UPII 199-6 sp. L5

TABLE 2 Taxa associated with individuals with sleep-related condition ofshift work (e.g., night shift work, with daytime sleeping periods,etc.), where the first through fourth columns are a set corresponding toeach other, the fifth through eighth columns are a set corresponding toeach other, and the ninth through twelfth columns are a setcorresponding to each other. Column header “s” corresponds to site (“g”corresponds to gut, “ge” corresponds to genitals”, “n” corresponds tonose, “s” corresponds to skin, “m” corresponds to mouth”); column header“n” corresponds to taxon name; column header “r” corresponds to taxonrank (“f” corresponds to family, “g” corresponds to genus, “s”corresponds to species, “p” corresponds to phylum, “c” corresponds toclass, “o” corresponds to order); column header “c” corresponds tocorrelation (“+” corresponds to correlation and/or other associationwith control group individuals; “−” corresponds to correlation and/orother association with condition group individuals (sleep-relationcondition of shift work)). s n r c s n r c s n r c g Bacteroidaceae f −g Finegoldia sp. S5- s + n Rhodobacteraceae f + A7 g Bacteroides g − gNegativicoccus sp. s − n Xanthomonadaceae f + S5-A15 g Bacteroides s + gCorynebacterium s + n Fusobacteria p + thetaiotaomicron frankenforstenseg Bacteroides s + g Megasphaera s − n Leptotrichia g + uniformismassiliensis g Bacteroides s − g Corynebacterium s − n Rothia g +vulgatus sp. jw37 g Roseburia g + g Streptococcus sp. s + n Actinomycess + 2011_Oral_MS_A3 neuii g Faecalibacterium s + g Veillonella sp. s + nCutibacterium s + prausnitzii 2011_Oral_VSA_D3 avidum g Desulfovibriog + g Alloprevotella g + n Propionimicrobium s + lymphophilum gDesulfovibrio s + g Dialister sp. s − n Peptoniphilus s + sp. S7MSR5lacrimalis g Acidaminococcus g − g Intestinimonas s + n Anaerococcus s +butyriciproducens lactolyticus g Herbaspirillum g − g Lactobacillus sp.s + n Anaerococcus s − C30An8 tetradius g Herbaspirillum s − gAnaerococcus sp. s − n Anaerococcus s + seropedicae S8 87-3 vaginalis gBacteroidetes p − g Anaerococcus sp. s − n Microbacterium g − S8 F2 gProteobacteria p + g Porphyromonas sp. s − n Streptophyta p + S8 86-12 gFirmicutes p + g Actinomyces sp. S9 s − n Dermabacter g + PR-21 gSarcina g + g Anaerococcus sp. s − n Dermabacter s + S9 PR-5 hominis gStreptococcaceae f − g Finegoldia sp. S9 s + n Veillonella s − AA1-5atypica g Streptococcus g + g Murdochiella sp. S9 s − n Corynebacteriums − PR-10 glucuronolyticum g Clostridium g − g Murdochiella sp. S9 s − nDialister g + PR-10 g Actinobacteria c + g Olsenella sp. S9 s + nStenotrophomonas g − HS-6 g Lachnospira g + g Peptococcus sp. S9 s − nBrevundimonas g + Pr-12 g Lachnospira s + g Peptoniphilus sp. s − nBradyrhizobiaceae f + pectinoschiza S9 PR-13 g Betaproteobacteria c + gCoprobacter g − n Rhodospirillaceae f + g Deltaproteobacteria c + gCoprobacter g − n Sphingomonadaceae f − g Asaccharospora s + gCorynebacterium s − n Corynebacterium s − irregularis sp. 713182/2012argentoratense g Veillonellaceae f + g Atopobium deltae s + nBrachybacterium g + g Clostridiaceae f + g Helcococcus s − n Abiotrophiag + seattlensis g Phascolarctobacterium g − g Staphylococcus sp. s − nGranulicatella s − 334802 adiacens g Phascolarctobacterium s − gSenegalimassilia g + n Abiotrophia s + faecium defectiva gLactobacillaceae f + g Peptoniphilus sp. s + n Lautropia g − DNF00840 gDorea s + g Romboutsia g − n Lactobacillus s − formicigenerans rhamnosusg Sutterella g + g Romboutsia g − n Lactobacillus s + crispatus gPseudobutyrivibrio g + g Veillonella s + n Ralstonia g − seminalis gBacteroides s + g Terrisporobacter g + n Flavobacteriaceae f + caccae gVerrucomicrobiales o + g Terrisporobacter g + n Actinobacillus s −porcinus g Holdemania g + g Intestinibacter g + n Pantoea g − gHoldemania s + g Peptoniphilaceae f − n Anaerococcus s − filiformisoctavius g Fibrobacteres p + g Peptoniphilaceae f − n Kocuria g + gVerrucomicrobia p + g Atopobiaceae f − n Actinotignum s + schaalii gOxalobacteraceae f − g Akkermansiaceae f + n Trueperella s − bernardiaeg Burkholderiales o + g Tissierellia c − n Chryseobacterium g + gCoriobacteriaceae f + g Tissierellia c − n Bergeyella g + g Eggerthellag + g Tissierellales o − n Corynebacterium s + ulcerans g Coriobacteriiac + g Tissierellales o − n Actinomyces s + europaeus g Coriobacterialeso + g Veillonellales o + n Facklamia g − g Bacteroides s − gSelenomonadaceae f + n Facklamia sp. s − acidifaciens 164-92 g Blautialuti s + g Tannerellaceae f + n Facklamia sp. s − 1440-97 g Bacilli c +g Spirochaetales o + n Mesorhizobium g − g Bacteroides sp. s − gDeinococcus g + n Phyllobacteriaceae f − AR20 g Bacteroides sp. s − gLactococcus g + n Kocuria s + AR29 rhizophila g Collinsella g + gLactococcus g + n Pseudomonadales o − g Oscillospira g − gDeinococcaceae f + n Campylobacteraceae f − g Erysipelotrichaceae f + gSpirochaetes p − n Tessaracoccus g + g Roseburia s − g Spirochaetia c −n Kluyvera s + intestinalis georgiana g Bacteroidales o − g Bacteroidessp. s − n Collinsella s + XB44A aerofaciens g Rikenellaceae f − gPhascolarctobacterium s − n Actinobaculum g − succinatutens gShuttleworthia g + g Comamonas g − n Caulobacteraceae f + g Clostridiac + g Neisseria flavescens s + n Bacillus s + pseudofirmus gClostridiales o + g Aggregatibacter s + n Comamonadaceae f − aphrophilusg Lachnospiraceae f + g Aggregatibacter s + n Delftia g − segnis gPeptostreptococcaceae f + g Pasteurella g + n Enterococcaceae f + gLactobacillales o + g Rodentibacter s + n Rhizobiaceae f +pneumotropicus g Dorea g + g Fibrobacter g − n Facklamia s + languida gDesulfovibrionaceae f + g Selenomonas g + n Gemella sp. 933- s + 88 gBacteroidia c − g Capnocytophaga g + n Bifidobacteriales o − gActinobacteria p + g Cyanobacteria p + n Corynebacteriales o − gVerrucomicrobiae c + g Actinomyces s + n Propionibacteriales o −viscosus g Verrucomicrobiaceae f + g Bifidobacterium s + nBrevibacteriaceae f − adolescentis g Fibrobacteria c + g Bifidobacteriums + n Dermabacteraceae f + adolescentis g Fibrobacteraceae f + gAnaeroplasma g + n Microbacteriaceae f − g Anaerostipes g + gAsteroleplasma g + n Nocardiaceae f − g Desulfovibrionales o + gMethanosphaera g + n Bosea g + g Oscillospiraceae f − g Methanosphaeras + n Achromobacter s + stadtmanae xylosoxidans g Faecalibacterium g + gPorphyromonas s + n Mogibacterium g − endodontalis g Fibrobacterales o +g Prevotella s + n Propionibacterium s + intermedia sp. V07/12348 gAlistipes g − g Prevotella s + n Aerococcus s + nigrescens christenseniig Akkermansia g + g Prevotella oris s − n Eremococcus s + coleocola gAkkermansia s + g Dolosigranulum g − n Dorea longicatena s + muciniphilag Hespellia g − g Dolosigranulum s − n Staphylococcaceae f + pigrum gAnaerotruncus g − g Acetitomaculum g + n Enterobacterales o + gMarvinbryantia g + g Mogibacterium s + n Aquabacterium g + timidum gSubdoligranulum g + g Terrisporobacter s − n Aquabacterium s +glycolicus sp. Aqua2 g Flavonifractor s − g Veillonella dispar s + nCandidatus p + plautii Saccharibacteria g Bacteroides s + gSucciniclasticum g − n Pseudoglutamicibacter s − finegoldii albus gLactonifactor s + g Bifidobacterium sp. s + n Solobacterium s +longoviformis moorei g Roseburia s + g Porphyromonas s − nGranulicatella g + inulinivorans catoniae g Blautia s − g Acidobacteriap − n Flavobacteriia c + wexlerae g Lactonifactor g + g Prevotellapallens s − n Brucellaceae f + g Moryella g − g Thermoanaerobacteraleso + n Deinococcales o + g Adlercreutzia s − g Streptococcus s + nMethylobacteriaceae f + equolifaciens peroris g Adlercreutzia g − gEggerthella lenta s + n Burkholderiaceae f − g Erysipelotrichia c + gCatenibacterium s − n Solobacterium g + mitsuokai g Erysipelotrichaleso + g Pseudoflavonifractor s + n Pseudomonas s + capillosus brenneri gRuminococcaceae f + g Anaerovorax g + n Actinomyces s + radingae gClostridiales f f − g Parasporobacterium g − n Chromatiales o + XIII.Incertae Sedis g Acidaminococcus s − g Sphingobacteriia c + nXanthomonadales o + sp. D21 g Blautia g + g Turicibacter s − nOceanospirillales o − sanguinis g Roseburia sp. s + g Actinomyces sp.s + n Pseudomonadaceae f − 11SE39 oral strain Hal- 1065 g Bacteroidessp. s − g Anaerotruncus s + n Pasteurellales o − D22 colihominis gAlistipes sp. s − g Victivallis g − n Aerosphaera g + RMA 9912 g Blautiasp. Ser8 s + g Anaeroplasmatales o + n Aerosphaera s + taetra g Blautiafaecis s − g Anaeroplasmataceae f + n Granulicatella s + elegans gSelenomonadales o − g Turicibacter g − n Lactobacillus s − iners gAcidaminococcaceae f − g Scardovia g + n Finegoldia g − g Negativicutesc − g Sphingobacteriales o + n Corynebacterium s − mastitidis gEggerthella sp. s + g Chloroflexi p + n Peptoniphilus g − HGA1 gStreptococcus s + g Acidobacteriia c − n Sphingobium g + sp. BS35a gFlavonifractor g + g Acidobacteriales o − n Novosphingobium g gSutterellaceae f + g Thermodesulfobiaceae f n Anaerococcus g − gAnaerostipes s + g Leptotrichia s − n Thalassospira g + sp. 5_1_63FAAgenomosp. C1 g Fusicatenibacter s + g Megasphaera s − n Brevibacterium s− saccharivorans genomosp. C1 paucivorans g Blautia sp. s + g Scardoviawiggsiae s + n Eremococcus g + YHC-4 g Intestinimonas g − gVictivallaceae f − n Porphyromonadaceae f − g Fusicatenibacter g + gLentisphaerae p + n Prevotellaceae f + g Eisenbergiella g − gVictivallales o − n Facklamia s − hominis g Eisenbergiella s − gBacteroides nordii s + n Varibaculum g − tayi g Candidatus g + gAnaerolineae c + n Varibaculum s − Soleaferrea cambriense gPeptoclostridium g − g Streptococcus s + n Corynebacterium s −dentirousetti spheniscorum g Asaccharospora g + g Parabacteroides s + nPeptococcaceae f + johnsonii g Erysipelatoclostridium g + g Howardellas + n Bacillaceae f + ureilytica ge Bacteroidaceae f + g Opitutae c − nAerococcaceae f − ge Bacteroides g + g Puniceicoccales o − nCarnobacteriaceae f + ge Bacteroides s + g Aggregatibacter g + nMegasphaera s − thetaiotaomicron micronuciformis ge Bacteroides s + gPrevotella s − n Deinococci c + vulgatus nanceiensis ge Roseburia g + gDesulfovibrio sp. s + n Dialister sp. s + 3_1_syn3 E2_20 geFaecalibacterium s + g Bacteroides sp. s − n Propionibacterium s +prausnitzii 2_2_4 sp. MSP09A ge Herbaspirillum g − g Bacteroides sp. s −n Flavobacteriales o + 3_1_40A ge Herbaspirillum s − g Gordonibacter s +n Propionimicrobium g + seropedicae pamelaeae ge Bacteroidetes p + gGordonibacter s + n Fusobacteriia c + pamelaeae ge Proteobacteria p + gBlautia glucerasea s + n Fusobacteriales o + ge Firmicutes p − gBacteroides sp. s − n Fusobacteriaceae f + DJF_B097 ge Sarcina g − gBacteroides sp. s − n Rhodospirillales o + DJF_B097 ge Streptococcaceaef − g Actinomyces oris s + n Rhodobacterales o + ge Streptococcus g + gButyricimonas s + n Sphingomonadales o − virosa ge Actinobacteria c + gAnaerotruncus sp. s + n Caulobacterales o + NML 070203 ge Lachnospirag + g Parabacteroides s + n Neisseriales o − gordonii geBetaproteobacteria c − g Robinsoniella g − n Campylobacterales o − geVeillonellaceae f + g Bifidobacterium s − n Subdoligranulum s +stercoris variabile ge Clostridiaceae f − g Rhizobium sp. T45 s − nAlistipes s + finegoldii ge Lactobacillaceae f − g Odoribacter laneuss + n Bifidobacterium s − longum ge Sutterella g + g Gordonibacter g + nDialister invisus s ge Bacteroides s + g Gordonibacter g + nPeptoniphilus sp. s + caccae 2002-38328 ge Verrucomicrobiales o + gSlackia sp. NATTS s − n Peptoniphilus sp. s − 2002-2300004 geVerrucomicrobia p + g Prevotella sp. WAL s − n Curvibacter s − 2039Ggracilis ge Oxalobacteraceae f − g Caldicoprobacteraceae f + n Bacillussp. T41 s − ge Burkholderiales o − g Leptotrichia sp. s − nFastidiosipila s + PG10 sanguinis ge Coriobacteriaceae f + gLactobacillus sp. s + n Helcococcus s − NRCT-KU 1 sueciensis geCoriobacteriia c + g Actinomyces sp. s − n Pseudoclavibacter g − ICM47ge Coriobacteriales o + g Atopobium sp. s − n Oribacterium g + ICM57 geBlautia luti s + g Oribacterium sp. s − n Curvibacter g − OBRC12 geBacilli c − g Lachnoanaerobaculum s + n Odoribacter g sp. MSX33 geBacteroides sp. s + g Lachnoanaerobaculum s + n Roseburia faecis s +AR20 orale ge Collinsella g + g Pseudomonas sp. s + n Dialister s + KB23propionicifaciens ge Erysipelotrichaceae f + g Pseudoflavonifractor g +n Dialister s + micraerophilus ge Bacteroidales o + g Fusobacterium sp.s + n Porphyromonas s − OBRC1 somerae ge Shuttleworthia g − g Dielmafastidiosa s + n Shinella g + ge Clostridia c + g Phascolarctobacteriums − n Pelomonas g − sp. 377 ge Clostridiales o + g Phascolarctobacteriums − n Peptostreptococcus s sp. 377 stomatis ge Lachnospiraceae f − gParabacteroides s − n Bergeyella sp. s − faecis AF14 gePeptostreptococcaceae f + g Veillonella sp. s − n Bacteroides dorei s +2011_Oral_VSA_B12 ge Lactobacillales o − g Veillonella sp. s + nPeptoniphilus sp. s − 2011_Oral_VSA_C9 gpaco18A ge Bacteroidia c + gRothia sp. THG-N7 s + n Peptoniphilus sp. s + gpac148 ge Actinobacteriap + g Actinomyces sp. s − n Prevotella s + S6-Spd3 timonensis geVerrucomicrobiae c + g Lentisphaeria c − n Lysinibacillus g + geVerrucomicrobiaceae f + g Bacteroides sp. s − n Citrobacter sp. s +J1511 BW4 ge Faecalibacterium g + g Bacteroides sp. s − n Pseudomonassp. s − J1511 G1116 ge Akkermansia g + g Tessaracoccus s − nAnaerococcus s − lapidicaptus murdochii ge Akkermansia s + gFretibacterium g + n Acinetobacter sp. s + muciniphila RBE2CD-114 geSubdoligranulum g + g Robinsoniella sp. s − n Streptococcus sp. s +KNHS210 11aTha1 ge Moryella g + g Candidatus g − n Methylobacterium s +Stoquefichus sp. CBMB45 ge Erysipelotrichia c + g Butyricimonas s − nVeillonella s + faecihominis rogosae ge Erysipelotrichales o + gButyricimonas s − n Jonquetella g − paravirosa ge Ruminococcaceae f + gDielma g − n Jonquetella s − anthropi ge Clostridiales f f + g Alistipesinops s − n Pelomonas s − XIII. Incertae aquatica Sedis ge Blautia g + gCoprobacter s + n Pantoea vagans s − secundus ge Bacteroides sp. s + gAnaerofilum g + n Anaerobacillus s − D22 alkalidiazotrophicus geSelenomonadales o + g [Collinsella] s − n Rhodopseudomonas s +massiliensis boonkerdii ge Acidaminococcaceae f + g Bifidobacterium s +n Brevibacterium s − choerinum ravenspurgense ge Negativicutes c + gCampylobacter s + n Dialister s + jejuni succinatiphilus geStreptococcus s + g Moraxella s − n Pseudomonas sp. s + sp. BS35acatarrhalis GmFRB023 ge Sutterellaceae f + g Hafnia g + n Porphyromonass − bennonis ge Fusicatenibacter s + g Hafnia alvei s + n Peptoniphiluss − saccharivorans duerdenii ge Fusicatenibacter g + g Klebsiellaoxytoca s + n Synergistetes p − ge Campylobacter g + g Morganella g + nClostridiales f XI. f − Incertae Sedis ge Achromobacter g − g Morganellas + n Parvimonas g + morganii ge Pseudomonas g g Proteus vulgaris s + nCorynebacterium s + freiburgense ge Ralstonia s + g Aeromonas g + nDelftia lacustris s − pickettii ge Rhizobiales o + g Fusobacterium s + nBrevibacterium s + perfoetens massiliense ge Rhizobium g + gFusobacterium s + n Phyllobacterium s varium sp. T50 ge Mesorhizobium s− g Fusobacterium s − n Negativicoccus s − loti necrogenessuccinicivorans ge Methylobacterium g + g Fusobacterium s − n Lautropiasp. s − ulcerans TeTO ge Neisseria s + g Acidaminococcus s − nPseudoclavibacter s − macacae fermentans sp. Timone ge Alcaligenaceae f− g Megasphaera s − n Synergistia c − elsdenii ge Ochrobactrum g + gRhodobacter g − n Synergistales o − ge Enterobacteriaceae f + gLeuconostoc g − n Synergistaceae f − ge Citrobacter g g Leuconostoclactis s − n Klebsiella sp. B12 s + ge Kluyvera g + g Leuconostoc s − nOchrobactrum sp. s + carnosum SCTS14 ge Pasteurellaceae f + gClostridium s − n Lactobacillus sp. s + ventriculi 7_1_47FAA geHaemophilus g + g Blautia hansenii s − n Peptoniphilus sp. s + oraltaxon 836 ge Haemophilus s + g Streptococcus s − n Veillonella sp. s +influenzae equinus oral taxon 780 ge Haemophilus s + g Enterococcushirae s + n Corynebacterium s + parainfluenzae canis ge Campylobacters + g Blautia coccoides s − n Tessaracoccus sp. s + ureolyticusSL014B-79A ge Porphyromonas g + g Romboutsia s − n Peptoniphilus sp. s −lituseburensis JCM 8143 ge Prevotella g + g Weissella confusa s − nCorynebacterium s − sp. NML96-0085 ge Fusobacterium g + g Lactobacilluss + n Anaerobacillus g − delbrueckii ge Rhodopseudomonas g + gLactobacillus s − n Corynebacterium s − helveticus sp. NML 97-0186 geGammaproteobacteria c + g Lactobacillus s + n Actinomyces sp. s +animalis oral taxon 175 ge Peptostreptococcus g + g Lactobacillus s − nPeptococcus sp. s − ruminis oral taxon 168 ge Finegoldiamagna s + gBifidobacterium s − n Peptoniphilus sp. s − catenulatum oral taxon 375ge Peptostreptococcus s + g Eubacterium g + n Streptococcus sp. s −anaerobius oral taxon G59 ge Micrococcaceae f − g Eubacterium s + nBrevundimonas s + limosum sp. V3M6 ge Staphylococcus g + gPropionibacterium s − n Peptoniphilus s − freudenreichii coxii geStreptococcus s + g Acholeplasmataceae f + n Stomatobaculum s − gordoniilongum ge Streptococcus s + g Acholeplasma g + n Peptoniphilus sp. s −thermophilus 1-14 ge Streptococcus s − g Sporomusa g − n Peptoniphilussp. s − agalactiae 7-2 ge Streptococcus s + g Carnobacterium g + nRalstonia sp. s − parasanguinis S2.MAC.005 ge Streptococcus s + gCarnobacterium s + n Stenotrophomonas s + anginosus maltaromaticum sp.KITS-1 ge Streptococcus s + g Synergistes g + n Negativicoccus g −dysgalactiae ge Enterococcus g + g Bifidobacterium s + n Shinella sp.DR33 s + animalis ge Enterococcus s + g Bacteroides ovatus s − nAcinetobacter sp. s − faecalis C-S-NA3 ge Aerococcus g − g Bacteroidesovatus s − n Stenotrophomonas s + sp. C-S-TSA3 ge Aerococcus s + gRikenella g + n Veillonella sp. s − urinae CM60 ge Gemella g + gRikenella s + n Actinomyces sp. s + microfusus ICM54 ge Atopobium g + gCellulosilyticum s − n Fusobacterium s − lentocellum sp. ACB2 geBacillales o + g Brachyspira g + n Fusobacterium s + sp. CM21 geBacillus g + g Brachyspira s + n Veillonella sp. s + aalborgi AS16 geLysinibacillus s + g Bacteroides sp. s − n Anaerococcus sp. s −sphaericus 8404299 ge Lactobacillus g − g Blautia producta s − nAnaerococcus sp. s + 8405254 ge Lactobacillus s − g Lactobacillus kefiris + n Anaerococcus sp. s + acidophilus 9401487 ge Lactobacillus s + gRahnella g − n Anaerococcus s − gasseri provencensis ge Lactobacilluss + g Citrobacter s + n Bradyrhizobium s reuteri amalonaticus sp.68A4SAPT ge Lactobacillus s + g Acetivibrio g − n Sphingomonas s −vaginalis sp. 24T ge Corynebacteriaceae f + g Sporobacter g + nEnterococcus sp. s + SI-4 ge Actinomyces g + g Sporobacter s − n Boseasp. R- s + termitidis 46060 ge Actinomyces s + g Dysgonomonas s + nDelftia sp. BN- s − odontolyticus capnocytophagoides SKY3 geArthrobacter g − g Pseudobutyrivibrio s − n Staphylococcus s + ruminissp. WB18-16 ge Bifidobacterium g + g Weissella g − n Methylobacterium ssp. RK-2008-1 ge Bifidobacterium s + g Weissella hellenica s + nStaphylococcus s + bifidum sp. C9I2 ge Bifidobacterium s + g Sporomusa s− n Enterobacter sp. s − breve sphaeroides BS2-1 ge Brevibacterium g − gMitsuokella g − n Megasphaera sp. s + UPII 199-6 ge Corynebacterium g +g Mitsuokella s + n Sphingomonas s + multacida sp. 540 geCorynebacterium s − g Enterococcus s + n Trueperella g − sp. durans gePropionibacterium g − g Eubacterium s + n Mesorhizobium s − callanderisp. mat916 ge Cutibacterium s + g Blautia s − n Actinomyces sp. s +acnes hydrogenotrophica ICM58 ge Actinomycetales o + g Raoultella s + nSphingobium sp. s + ornithinolytica LC341 ge Actinomycetaceae f + gEnterobacter s + n Anaerococcus sp. s + asburiae PH9 ge Mobiluncus g + gMethanobrevibacter s − n Leptotrichiaceae f + sp. ge Mobiluncus s + gAnaerobacter g + n Murdochiella g + curtisii ge Mobiluncus s + gDesulfovibrio sp. s + n Lachnoanaerobaculum g − mulieris UNSW3caefatS geMycoplasmatales o + g Rhodocyclaceae f − n Varibaculum sp. s − CCUG45114 ge Mycoplasmataceae f + g Pseudomonas s − n Dermabacter sp. s +monteilii HFH0086 ge Mycoplasma g + g Bifidobacterium s − nPropionibacterium s + merycicum sp. KPL2005 ge Mycoplasma s + gBifidobacterium s + n Stomatobaculum g − hominis pullorum ge Ureaplasmag + g Leuconostocaceae f − n Actinomyces sp. s + S4-C9 ge Ureaplasma s +g Anaerovibrio g − n Atopobium sp. s + urealyticum S3MV26 ge Gardnerellag + g Anaerosinus s + n Atopobium sp. s + glycerini S3PFAA1-4 geGardnerella s + g Succinivibrionaceae f − n Atopobium sp. s + vaginalisS4-A11a ge Peptococcus g + g Succinivibrio g − n Gardnerella sp. s −S3PF20 ge Globicatella g − g Aeromonadaceae f + n Prevotella sp. S4- s −10 ge Globicatella s − g Lactobacillus s + n Negativicoccus s +sanguinis mucosae sp. S5-A15 ge Sphingomonas g g Papillibacter g + nCorynebacterium s + sp. jw37 ge Prevotella bivia s + g Coprobacillus g +n Streptococcus sp. s − 2011_Oral_MS_A3 ge Prevotella s + g Proteuspenneri s + n Alloprevotella g + buccalis ge Prevotella s + gLactobacillus s − n Stenotrophomonas s + disiens algidus sp. N017 geAlphaproteobacteria c + g Anaerostipes caccae s + n Bradyrhizobium s −sp. CCBAU 53380 ge Arcanobacterium g + g Pelistega g − n Anaerococcussp. s − S8 87-3 ge Arcanobacterium s + g Cupriavidus g + n Anaerococcussp. s − haemolyticum S8 F2 ge Gemella s + g Parasporobacterium s − nFinegoldia sp. S8 s + morbillorum paucivorans F7 ge Veillonella s − gCampylobacter s − n Finegoldia sp. S9 s − parvula faecalis AA1-5 geEpsilonproteobacteria c + g Oscillospira s − n Murdochiella sp. s +guilliermondii S9 PR-10 ge Bifidobacteriaceae f + g Fusobacterium s − nPeptoniphilus sp. s + equinum S9 PR-13 ge Propionibacteriaceae f − gAeromonadales o − n Corynebacterium s + sp. 713182/2012 ge Mollicutesc + g Bacillus sp. HC15 s − n Ralstonia sp. A52 s + ge Helcococcus g − gWeissella cibaria s + n Staphylococcus s − sp. 334802 geXanthomonadaceae f − g Brachyspiraceae f + n Peptoniphilus sp. s +DNF00840 ge Fusobacteria p + g Azospira g − n Veillonella s + seminalisge Leptotrichia g + g Collinsella s − n Intestinibacter g + intestinalisge Rothia g g Anaerosinus g + n Peptoniphilaceae f − ge Actinomyces s −g Dysgonomonas g + n Atopobiaceae f − neuii ge Propionimicrobium s + gBifidobacterium s + n Tissierellia c − lymphophilum scardovii geAnaerococcus s + g Enterococcus s − n Tissierellales o − hydrogenalispallens ge Peptoniphilus s + g Raoultella g + n Veillonellales o −lacrimalis ge Anaerococcus s + g Marvinbryantia s + n Selenomonadaceae f− lactolyticus formatexigens ge Anaerococcus s + g Victivallis vadensiss + n Cutibacterium g + prevotii ge Anaerococcus s + g Blautia schinkiis + n Spirochaetales o − vaginalis ge Lactobacillus s + g Robinsoniellas − n Deinococcus g − johnsonii peoriensis ge Dermabacter g + gAcholeplasmatales o + n Lactococcus g + ge Veillonella s + gEubacteriaceae f − n Deinococcaceae f + atypica ge Dialister g + gThermoanaerobacteraceae f − n Spirochaetes p − ge Stenotrophomonas g − gPlanococcaceae f − n Spirochaetia c − ge Sneathia s + g Mitsuokella s −n Neisseria canis s + sanguinegens jalaludinii ge Bradyrhizobiaceae f −g Gelria g − n Aggregatibacter s − aphrophilus ge Sphingomonadaceae f +g Sedimentibacter g + n Aggregatibacter s − segnis ge Brachybacteriumg + g Corynebacterium s + n Cardiobacteriaceae f + atypicum geAbiotrophia g + g Acidobacteriaceae f − n Capnocytophaga g + geAbiotrophia s + g Rhodocyclales o − n Capnocytophaga s + defectivagingivalis ge Lactobacillus s − g Allisonella g − n Capnocytophaga s −rhamnosus sputigena ge Lactobacillus s + g Allisonella g − nCyanobacteria p − crispatus ge Flavobacteriaceae f − g Allisonella s − nActinomyces s + histaminiformans viscosus ge Anaerococcus s + gAllisonella s − n Cardiobacterium g + octavius histaminiformans geActinotignum s + g Anaerofustis s − n Cardiobacterium s + schaaliistercorihominis hominis ge Trueperella s + g Methanomicrobia c − nTannerella s + bernardiae forsythia ge Actinomyces s + g Eggerthellasinensis s + n Porphyromonas s + europaeus endodontalis ge Facklamia g −g Bifidobacterium s − n Prevotella s + thermacidophilum nigrescens geFacklamia sp. s − g Bacteroides sp. s + n Prevotella oris s + 164-9231SF15 ge Facklamia sp. s − g Slackia faecicanis s − n Prevotella s +1440-97 oulorum ge Mesorhizobium g − g Anaerosporobacter s − nDolosigranulum g + mobilis ge Phyllobacteriaceae f − g Anaerofustis g −n Dolosigranulum s + pigrum ge Pseudomonadales o g Alistipes s − nLeptotrichia s − massiliensis buccalis ge Campylobacteraceae f + gVeillonella sp. ADV s + n Bifidobacterium s − 269.01 sp. geTessaracoccus g − g Catabacter g + n Porphyromonas s − catoniae geKluyvera s + g Catabacter s + n Corynebacterium s + georgianahongkongensis matruchotii ge Collinsella s + g Pseudoclavibacter s − nCapnocytophaga s + aerofaciens bifida granulosa ge Campylobacter s + gBacteroides sp. s + n Actinomyces s + hominis Smarlab 3301643 georgiaege Actinobaculum g + g Anaerolineaceae f + n Actinomyces s +graevenitzii ge Bifidobacterium s + g Anaerolineales o + n Prevotellapallens s + gallicum ge Bacillus s + g Proteiniphilum g + nCorynebacterium s + pseudofirmus durum ge Comamonadaceae f + gStreptococcus sp. s − n Streptococcus s + S16-11 peroris ge Delftia g +g Bacteroides sp. s + n Alloprevotella s + WH302 tannerae geEnterococcaceae f + g Bacteroides sp. s − n Centipeda g + 4072 geRhizobiaceae f − g Paucibacter g + n Centipeda s + periodontii geAtopobium s + g Alistipes s − n Mogibacterium s − vaginae onderdonkiipumilum ge Facklamia s + g Mitsuokella sp. s + n Moraxella caprae s −languida TM-10 ge Bifidobacteriales o + g Oscillibacter s − nSphingobacteriia c + valericigenes ge Micrococcales o − gBifidobacterium s − n Cardiobacteriales o + tsurumiense geCorynebacteriales o + g Megasphaera sp. s − n Turicibacter s − TrE9262sanguinis ge Propionibacteriales o − g Anaerococcus sp. s − nLeptotrichia s + gpac137 wadei ge Brevibacteriaceae f − g Weissella sp.H1a s − n Rothia aeria s − ge Dermabacteraceae f − g Bacteroides s − nTuricibacter g − xylanisolvens ge Microbacteriaceae f − g Barnesiellas + n Sphingobacteriales o + viscericola ge Bosea g − g Pediococcus sp.s + n Acidobacteriia c + MFC1 ge Achromobacter s − g Cronobacter s + nAcidobacteriales o + xylosoxidans dublinensis ge Mogibacterium g + gCronobacter s − n Actinomyces s + turicensis dentalis ge Aerococcus s −g Catabacteriaceae f + n Aggregatibacter g − christensenii geLactobacillus s + g Cellulosilyticum s − n Prevotella s + fornicalisruminicola nanceiensis ge Oligella g − g Bacteroides sp. s − nLachnoanaerobaculum s − CB57 saburreum ge Oligella s − g Sutterella s −n Leptotrichia s + urethralis parvirubra hongkongensis geStaphylococcaceae f + g Paraprevotella s + n Bifidobacterium s +xylaniphila stercoris ge Enterobacterales o + g Bacteroides sp. s − nRhizobium sp. s + 3_1_23 T45 ge Candidatus p − g Parabacteroides sp. s +n Leptotrichia sp. s + Saccharibacteria 20_3 oral taxon 225 gePseudoglutamicibacter s − g Nosocomiicoccus g + n Alloprevotella s +albus rava ge Lactobacillus s − g Nosocomiicoccus s + n Neisseria s +jensenii ampullae skkuensis ge Granulicatella g + g Comamonas sp. j41s + n Capnocytophaga s + sp. oral taxon 329 ge Flavobacteriia c − gButyricicoccus s + n Leptotrichia sp. s − pullicaecorum PTE15 geBulleidia g + g Cloacibacterium s − n Fusobacterium s + rupense sp. CM22ge Bulleidia s + g Fusobacterium sp. s + n Brevundimonas s + extructaDJF_B100 sp. FXJ8.080 ge Brucellaceae f + g Mitsuokella sp. s − nMoraxella sp. s − DJF_RR21 WB19-16 ge Methylobacteriaceae f + gGracilibacteraceae f − n Pseudomonas sp. s − KB23 ge Burkholderiaceaef + g Butyricimonas s + n Lysinibacillus sp. s + synergistica SJ2SN2 geActinomyces s + g Selenomonas sp. s − n Fusobacterium s + turicensisYcbo8 sp. OBRC1 ge Xanthomonadales o − g Streptococcus sp. s − nNeisseria oralis s − TMO13 ge Pseudomonadaceae f g Asaccharobacter g + nRothia sp. THG- s + N7 ge Pasteurellales o + g Coprobacillus sp. s + nCandidatus g + D6 Saccharimonas ge Globicatella s + g Bifidobacteriumsp. s − n Bacteroides sp. s + sulfidifaciens 138 J1511 ge Aerosphaerag + g Butyricicoccus g + n Pseudomonas s + aeruginosa ge Aerosphaera s +g Bacteroides sp. D20 s + n Moraxella s − taetra catarrhalis geGranulicatella s + g Hydrogenoanaerobacterium g + n Enterobacter s +elegans cloacae ge Lactobacillus s − g Bacteroides fluxus s − nMorganella g + iners ge Finegoldia g + g Bacteroides s + n Morganellas + oleiciplenus morganii ge Anaeroglobus g + g Alistipes s + nAeromonas g + indistinctus ge Anaeroglobus s + g Slackia piriformis s −n Rhodobacter g + geminatus ge Pseudoglutamic s + g Collinsella tanakaeis − n Leuconostoc g + ibacter cumminsii ge Peptoniphilus g + gPyramidobacter s + n Leuconostoc s + piscolens lactis ge Gallicola g + gBacteroides sp. TP-5 s + n Weissella confusa s + ge Sphingobium g + gAnaerostipes s + n Lactobacillus s − butyraticus curvatus geAnaerococcus g + g Aeromonas sp. B11 s + n Rhodocyclaceae f ge Sneathiag + g Acinetobacter sp. s + n Pseudomonas s + 423D monteilii geBrevibacterium s − g Acinetobacter sp. s + n Leuconostocaceae f −paucivorans 81A1 ge Porphyromona f + g Parabacteroides sp. s + nAeromonadaceae f + daceae D25 ge Prevotellaceae f + g Pantoea gaviniae s− n Aeromonadales o + ge Lactobacillus s + g Enterorhabdus s + nCorynebacterium s + sp. CR-609S caecimuris atypicum ge Facklamia s − gBacteroides faecis s + n Acidobacteriaceae f + hominis ge Actinomyces s− g Bacteroides faecis s + n Rhodocyclales o hongkongensis geLactobacillus s + g Blautia sp. Ser5 s + n Pseudoclavibacter s +coleohominis bifida ge Varibaculum g + g Eubacterium sp. s − nNosocomiicoccus g − SA11 ge Varibaculum s + g Bacteroides s − nNosocomiicoccus s − cambriense rodentium ampullae ge Corynebacterium s +g Paucibacter sp. 186 s + n Aeromonas sp. s − spheniscorum B11 gePeptococcaceae f + g Cellulosilyticum g − n Acinetobacter sp. s + 423Dge Bacillaceae f + g Caldicoprobacter g + n Lactobacillus sp. s + TAB-26ge Aerococcaceae f − g Enterobacter sp. s − n Pseudomonas sp. s − UDC345a101-18-2 ge Carnobacteriaceae f + g Lactobacillus sp. s + n Pseudomonassp. s − TAB-26 a111-5 ge Veillonella s + g Bifidobacterium s + nLactococcus sp. s + montpellierensis biavatii MH5-2 ge Dialister sp. s +g Megasphaera sp. s − n Pseudomonas sp. s + E2_20 BS-4 CBMAI 1177 gePropionibacterium s − g Pseudomonas sp. s + n Propionibacterium s − sp.MSP09A a101-18-2 sp. KPL1844 ge Streptococcus s + g Pseudomonas sp. s +n Streptococcus sp. s − pasteurianus a111-5 2011_Ileo_MS_A10 geFlavobacteriales o − g Rothia sp. RV13 s − n Rahnella sp. s + BSP18 geActinobaculum s + g Klebsiella sp. s + n Shewanella g − massilienseSOR89 ge Propionimicrobium g + g Lactococcus sp. s + n Caulobacter g −MH5-2 ge Fusobacteriia c + g Pseudomonas sp. s − n Caulobacter sp. s −CBMAI 1177 ge Fusobacteriales o + g Campylobacter sp. s − nPlanctomycetales o + 0402694-C0078 ge Fusobacteriaceae f + gLactobacillus sp. s + n Planctomycetaceae f + C4I2 ge Sphingomonadaleso + g Leuconostoc sp. s + n Brevundimonas s + C7I4 diminuta geBacteroides s + g Bacteroides sp. s + n Acetobacteraceae f +massiliensis dnLKV9 ge Campylobacterales o + g Parabacteroides sp. s − nAeromonas s + dnLKV8 salmonicida ge Bifidobacterium s − g Bacteroidessp. s + n Streptococcus s − longum HPS0048 sobrinus ge Peptoniphilus s +g Methanomassiliicoccus g − n Alloiococcus g + sp. 2002-38328 gePeptoniphilus s + g Anaerovibrio sp. s + n Alloiococcus otitis s + sp.2002- 656 2300004 ge Actinomyces sp. s + g Anaerovibrio sp. s − nPseudonocardia g − 2002-2301122 765 ge Curvibacter s + g Acidaminococcuss − n Pseudonocardiaceae f + gracilis sp. BV3L6 ge Bacillus sp. T41 s +g Finegoldia sp. s + n Brochothrix g − BV3C29 ge Sutterella s + gCruoricaptor s − n Solanum s − stercoricanis ignavus lycopersicum geFastidiosipila g + g Lactococcus sp. s + n Solanum g − STM1 geFastidiosipila s + g Herbaspirillum sp. s + n Acidovorax g + sanguinisYR522 ge Helcococcus s − g Phascolarctobacterium s − n Sphingobium s +sueciensis sp. canine oral yanoikuyae taxon 149 ge Pseudoclavibacter g −g Peptococcus sp. s + n Micromonosporaceae f + canine oral taxon 334 geCurvibacter g + g Proteiniclasticum g − n Turicella otitidis s − gePorphyromonas s + g Bacteroides sp. s + n Staphylococcus s − uenonis14(A) saprophyticus ge Dialister s + g Comamonas s − n Janthinobacteriumg − propionicifaciens jiangduensis ge Dialister s + g Turicibacter sp. s− n Cutibacterium s − micraerophilus LA62 granulosum ge Porphyromonass + g Acidaminococcus s + n Microbacterium s − somerae sp. HPA0509lacticum ge Pelomonas g + g Propionibacterium s − n Variovorax g + sp.KPL1844 ge Peptoniphilus s + g Brachybacterium s + n Blastococcus s −sp. gpaco18A sp. S26 aggregatus ge Peptoniphilus s + g Butyricimonas sp.s + n Acinetobacter s − sp.gpac148 180-3 radioresistens ge Prevotellas + g Butyricimonas sp. s + n Leucobacter g + timonensis 214-4 geLysinibacillus g + g Anaerostipes s + n Nesterenkonia g − rhamnosivoransge Howardella g + g Butyricimonas sp. s + n Dermacoccus g − GD2 geCitrobacter sp. s g Streptococcus sp. s + n Acidimicrobiia c + BW42011_Ileo_MS_A10 ge Anaerococcus s + g Streptococcus sp. s + nAcidimicrobiales o + murdochii 2011_Oral_MS_D12 ge Arcanobacterium s gVeillonella sp. s + n Rubrobacteria c + sp. NML 2011_Oral_VSA_D12 06501ge Streptococcus s + g Sutterella sp. 252 s − n Micromonosporales o +sp. 11aTha1 ge Methylobacterium s + g Roseburia sp. 499 s + nPseudonocardiales o + sp. CBMB45 ge Prevotella s + g Anaerostipes sp.s + n Frankiales o + amnii 494a ge Alloscardovia g + g Anaerostipes sp.s + n Nocardioidaceae f + 992a ge Alloscardovia s + g Rahnella sp. FB303s − n Intrasporangiaceae f + omnicolens ge Rhizobium sp. s + gCitrobacter sp. s − n Geodermatophilaceae f + sc-w HD4.9 ge Jonquetellag + g Megasphaera sp. s − n Cytophagaceae f + DNF00912 ge Pelomonas s +g Megasphaera sp. s − n Hymenobacter g + aquatica S6-MB2 geAnaerobacillus s + g Candidatus g − n Acinetobacter s +alkalidiazotrophicus Methanomethylophilus ursingii ge Rhodopseudomonass + g Rahnella sp. BSP15 s − n Dyadobacter g + boonkerdii geBrevibacterium s − g Rahnella sp. BSP18 s + n Alteromonadales o −ravenspurgense ge Dialister s + g Bacteroides s + n Turicella g −succinatiphilus caecigallinarum ge Porphyromonas s + g Pelistega indicas − n Dermacoccaceae f + bennonis ge Bosea sp. s + g Cruoricaptor g − nMassilia g + BIWAKO-01 ge Peptoniphilus s + g Terrisporobacter s + nSphingomonas s + duerdenii petrolearius aerolata ge Murdochiella s + gAcidaminococcales o − n Listeriaceae f − asaccharolytica geSynergistetes p + g Odoribacteraceae f + n Dermacoccus sp. s + Ellin183ge Atopobium sp. s + g Odoribacteraceae f + n Planctomycetes p + F0209ge Clostridiales f f + g Barnesiellaceae f + n Planctomycetia c + XI.Incertae Sedis ge Parvimonas g + g Barnesiellaceae f + n Solirubrobacterg + ge Tenericutes p + g Hyphomicrobiaceae f − n Brachybacterium s +muris ge Corynebacterium s + m Bacteroides s + n Actinomyces s −freiburgense thetaiotaomicron genomosp. C1 ge Delftia lacustris s + mBacteroides s − n Staphylococcus s − uniformis equorum geBifidobacterium s − m Bacteroides s + n Shewanellaceae f − Sp. 120vulgatus ge Brevibacterium s + m Roseburia g + n Rubellimicrobium g +massiliense ge Porphyromonas s + m Faecalibacterium s + n Burkholderiasp. s − sp. 2024b prausnitzii CBPB-HIM ge Pseudoclavibacter s + mHerbaspirillum g + n Sphingomonas s + sp. Timone oligophenolica geSynergistia c + m Herbaspirillum s + n Solirubrobacteraceae f +seropedicae ge Synergistales o + m Bacteroidetes p − n Methylobacteriums − adhaesivum ge Synergistaceae f + m Proteobacteria p + nPatulibacteraceae f + ge Lactobacillus s + m Firmicutes p − nDermacoccus sp. s − sp. BL302 SST-20 ge Lactobacillus s + m Sarcina g +n Flavobacterium s − sp. BL304 sp. CS43 ge Ochrobactrum s + mStreptococcaceae f − n Moraxella sp. s + sp. SCTS14 BBN2P-02d geLactobacillus s − m Streptococcus g − n Solirubrobacterales o + sp.7_1_47FAA ge Peptoniphilus s + m Clostridium g − n Kocuria sp. s + sp.oral taxon M2T9B2 836 ge Corynebacterium s + m Actinobacteria c − nBrevundimonas s + canis sp. JW23.4a ge Tessaracoccus s − m Lachnospirag + n Pseudomonas sp. s − sp. SL014B-79A DQ-01 ge Staphylococcus s − mLachnospira s + n Microbacterium s + sp. FXY54 pectinoschiza sp. PCRB024ge Peptoniphilus s m Betaproteobacteria c + n Cytophagia c + sp. JCM8143 ge Corynebacterium s + m Deltaproteobacteria c + n Cytophagales o +sp. NML96- 0085 ge Anaerobacillus g + m Asaccharospora s − n Aerococcussp. s − irregularis B43(2010) ge Peptoniphilus s + m Veillonellaceae f +n Acinetobacter sp. s + sp. oral taxon WB22-23 375 ge Peptoniphilus s +m Clostridiaceae f − n Micrococcus sp. s + coxii WB18-01 geHerbaspirillum s + m Phascolarctobacterium s + n Nesterenkonia sp. s −huttiense faecium JS3 ge Peptoniphilus s + m Lactobacillaceae f − nPseudomonas sp. s − sp. 1-14 PDD-27b-3 ge Peptoniphilus s + m Dorea s +n Sphingomonas s sp. 7-2 formicigenerans sp. PDD-26b-16 geStenotrophomonas s − m Sutterella g − n Sphingomonas s + sp. KITS-1 sp.KOPRI 25661 ge Negativicoccus g + m Pseudobutyrivibrio g − nFerruginibacter g + ge Lactobacillus s + m Bacteroides caccae s + nMassilia sp. hp37 s + sp. Akhmr01 ge Fusobacterium s + mVerrucomicrobiales o + n Defluviimonas g + sp. ACB2 ge Fusobacterium s +m Fibrobacteres p + n Ochrobactrum sp. s + sp. CM21 LC498 geAnaerococcus s + m Oxalobacteraceae f + n Acinetobacter sp. s − sp.8404299 HD5.2 ge Anaerococcus s + m Burkholderiales o + n Rhizobium sp.s − sp. 8405254 10II ge Anaerococcus s + m Coriobacteriaceae f − nBrevibacterium s + sp. 9401487 sp. MBTD_CMFRI_Br02 ge Anaerococcus s + mEggerthella g + n Moraxella sp. s − provencensis ge Enterococcus s + mCoriobacteriia c − n Yersinia g + sp. SI-4 ge Bosea sp. R- s − mCoriobacteriales o − n Yersinia s + 46060 enterocolitica geLactobacillus s + m Bacteroides s + n Streptococcus s + sp. acidifaciensoralis MYMRS/TEN2 ge Delftia sp. BN- s − m Blautia luti s + n Bacilluscereus s − SKY3 ge Staphylococcus s + m Bacilli c − n Peredibacter s +sp. C9I2 starrii ge Megasphaera s − m Bacteroides sp. s + nBrachybacterium s + sp. UPII 199-6 AR20 faecium ge Megasphaera s − mBacteroides sp. s + n Kytococcus g + sp. UPII 135-E AR29 geCorynebacterium s + m Collinsella g − n Duganella g − epidermidicanis geTrueperella g + m Oscillospira g − n Fusibacter g − ge Mesorhizobium s +m Erysipelotrichaceae f − n Cellulomonadaceae f − sp. mat916 geActinomyces sp. s + m Roseburia s + n Sphingomonas s − ICM58intestinalis aquatilis ge Jonquetella sp. s + m Rikenellaceae f − nOchrobactrum s − BV3C4 tritici ge Prevotella sp. s + m Shuttleworthia g− n Spartobacteria c + BV3C7 ge Peptoniphilus s + m Clostridia c + nCandidatus g − sp. BV3AC2 Xiphinematobacter ge Megasphaera s + mClostridiales o + n Albidovulum s + sp. BV3C16-1 inexpectatum geSphingobium s + m Lachnospiraceae f + n Alkanindiges s − sp. LC341illinoisensis ge Anaerococcus s + m Peptostreptococcaceae f − nAlbidovulum g + sp. PH9 ge Leptotrichiaceae f + m Lactobacillales o − nBdellovibrionales o + ge Faecalibacterium s + m Dorea g + nBacteriovoracaceae f + sp. canine oral taxon 147 ge Murdochiella g + mDesulfovibrionaceae f + n Peredibacter g + ge Varibaculum s + mActinobacteria p − n Conchiformibius g − sp. CCUG 45114 ge Varibaculum sm Verrucomicrobiae c + n Erythrobacteraceae f + sp. CCUG 61255 gePropionibacterium s + m Verrucomicrobiaceae f + n Staphylococcus s + sp.sp. L10 KPL2005 ge Actinomyces sp. s + m Fibrobacteria c + n Rothia sp.BBH4 s − S4-C9 ge Atopobium sp. s + m Fibrobacteraceae f + n Luteimonass − MVA9 aestuarii ge Atopobium sp. s + m Anaerostipes g + n Acidovoraxsp. s + S3MV24 LR05 ge Atopobium sp. s + m Desulfovibrionales o + nClostridiales f f − S4-A11a XII. Incertae Sedis ge Dialister sp. S4- s +m Oscillospiraceae f − n Chryseobacterium s − 23 sp. Y1D ge Finegoldiasp. s + m Faecalibacterium g + n Pseudomonas sp. s − S3MVA9 PcFRB100 geGardnerella sp. s + m Fibrobacterales o + n Chryseobacterium s + S3PF20sp. IIL-Nv8 ge Prevotella sp. s + m Alistipes g + n Kocuria sp. M1- s +S4-10 36 ge Peptoniphilus s + m Akkermansia g + n Stenotrophomonas s +sp. S4-A10 sp. Z2-S2 ge Finegoldia sp. s + m Akkermansia s + nDeinococcus sp. s + S5-A7 muciniphila UAC-77 ge Negativicoccus s + mAnaerotruncus g + n Variovorax sp. s + sp. S5-A15 MM43Nov geCorynebacterium s + m Marvinbryantia g − n Kytococcus sp. s +frankenforstense YB227 ge Megasphaera s + m Subdoligranulum g + nAlkanindiges g + massiliensis ge Corynebacterium s + m Flavonifractors + n Campylobacter s + sp. jw37 plautii sputorum ge Streptococcus s + mRoseburia s + n Pseudomonas s − sp. inulinivorans syringae2011_Oral_MS_A3 ge Veillonella sp. s + m Blautia wexlerae s + nBordetella g + 2011_Oral_VSA_D3 ge Peptoniphilus s + m Moryella g + nPedobacter s − sp. DNF00192 heparinus ge Dialister sp. s mErysipelotrichia c − n Bergeyella s − S7MSR5 zoohelcum geStenotrophomonas s + m Erysipelotrichales o − n Porphyrobacter g + sp.N017 ge Lactobacillus s − m Ruminococcaceae f + n Streptococcus s + sp.C30An8 pneumoniae ge Bradyrhizobium s − m Clostridiales f XIII. f − nAerococcus s − sp. CCBAU Incertae Sedis viridans 53380 ge Anaerococcuss + m Blautia g + n Actinomyces s + sp. S8 87-3 israelii ge Finegoldiasp. s + m Roseburia sp. s + n Mycobacterium s + S8 F7 11SE39 chelonae gePorphyromonas s + m Bacteroides sp. D22 s + n Brachymonas g − sp. S886-12 ge Actinomyces sp. s + m Alistipes sp. RMA s + n Pseudomonas s −S9 PR-21 9912 agarici ge Anaerococcus s + m Blautia faecis s + nStaphylococcus s − sp. S9 PR-16 vitulinus ge Anaerococcus s + mSelenomonadales o − n Moraxella s + sp. S9 PR-5 lincolnii ge Finegoldiasp. s + m Negativicutes c − n Alkalibacterium g + S9 AA1-5 geMurdochiella s + m Streptococcus sp. s + n Xenophilus g + sp. S9 PR-10BS35a ge Peptococcus sp. s + m Flavonifractor g + n Flavobacterium s −S9 Pr-12 sp. EP372 ge Peptoniphilus s + m Sutterellaceae f − nCorynebacterium s + sp. S9 PR-13 caspium ge Corynebacterium s + mAnaerostipes sp. s + n Epilithonimonas g − sp. 5_1_63FAA 713182/2012 geAtopobium s + m Fusicatenibacter s − n Porphyrobacter s + deltaesaccharivorans sp. NMC22 ge Parvibacter g + m Blautia sp. YHC-4 s + nBrevundimonas s + sp. a101-97 ge Ralstonia sp. s + m Intestinimonas g +n Massilia oculi s + A52 ge Helcococcus s − m Fusicatenibacter g − nXenophilus sp. s + seattlensis XB36 ge Staphylococcus s + mEisenbergiella g + n Kocuria sp. LW2- s sp. 334802 LEVI2-W geSenegalimassilia g − m Eisenbergiella tayi s + n Pseudochrobactrum g +ge Veillonella s − m Candidatus g + n Pseudochrobactrum s + seminalisSoleaferrea sp. a001-58 ge Intestinibacter g + m Peptoclostridium g + nFlavobacterium s − johnsoniae ge Peptoniphilaceae f + m Asaccharospora g− n Brochothrix s − thermosphacta ge Tissierellia c + mErysipelatoclostridium g − n Capnocytophaga s − cynodegmi geTissierellales o + m Campylobacter g − n Microbacterium s +xylanilyticum ge Spirochaetales o + m Campylobacter s − n Pseudomonassp. s + concisus GmFRB014 ge Spirochaetes p + m Achromobacter g + nFlavobacterium s + rivuli ge Spirochaetia c + m Flavobacterium g + nChryseobacterium s + anthropi ge Lactobacillus s − m Rhizobiales o − nDeinococcus s + taiwanensis taklimakanensis ge Phascolarctobacterium s +m Rhizobium g − n Halomonas sp. s − succinatutens VS-102 ge Leptotrichias + m Methylobacterium g − n Alkalibacterium s + hongkongensis sp. I-5ge Methylobacterium s + m Moraxellaceae f + n Methylobacterium s +organophilum sp. JC86 ge Bifidobacterium s + m Moraxella g + nShewanella sp. s − choerinum bk_8 ge Mycoplasma s + m Neisseriaceae f +n Sphingobacterium s − spermatophilum sp. KB45 ge Aerococcus s + mNeisseria g + n Bradyrhizobium s + sanguinicola sp. MG-2011-42- CD geBrevibacterium s − m Neisseria mucosa s + n Pseudonocardia s + sp. 10-1sp. MB03-A ge Lactobacillus s + m Neisseria elongata s − nChryseobacterium s + sp. B164 sp. PYR2 g Bacteroidaceae f − m Neisseriamacacae s + n Myroides g − g Bacteroides g − m Alcaligenaceae f + nKocuria sp. PDM-7 s − g Bacteroides s + m Enterobacteriaceae f − nFlavobacterium s + thetaiotaomicron sp. ICM 1082 g Bacteroides s + mKluyvera g − s Bacteroidaceae f − thetaiotaomicron g Bacteroides s − mPasteurellaceae f + s Bacteroides g − uniformis g Bacteroides s − mActinobacillus g + s Bacteroides s − uniformis uniformis g Bacteroides s− m Haemophilus g + s Bacteroides s − vulgatus vulgatus g Bacteroides s− m Haemophilus s − s Roseburia g + vulgatus influenzae g Roseburia g −m Haemophilus s + s Faecalibacterium s + parainfluenzae prausnitzii gRoseburia g − m Bacteroides fragilis s + s Herbaspirillum g + gFaecalibacterium s − m Parabacteroides s + s Bacteroidetes p −prausnitzii distasonis g Desulfovibrio g − m Campylobacter s − sProteobacteria p − gracilis g Desulfovibrio s + m Campylobacter s + sFirmicutes p + sp. ureolyticus g Acidaminococcus g − m Butyrivibrio g −s Sarcina g + g Herbaspirillum g + m Porphyromonas g + sStreptococcaceae f + g Herbaspirillum s + m Prevotella g − sStreptococcus g + seropedicae g Bacteroidetes p + m Fusobacterium g − sClostridium g + g Bacteroidetes p + m Fusobacterium s − s Actinobacteriac − nucleatum g Proteobacteria p + m Fusobacterium s + s Lachnospira g +periodonticum g Proteobacteria p + m Megasphaera g − s Lachnospira s +pectinoschiza g Firmicutes p − m Gammaproteobacteria c + sBetaproteobacteria c + g Sarcina g + m Peptostreptococcus g − sVeillonellaceae f − g Sarcina g + m Micrococcaceae f − s Clostridiaceaef + g Streptococcaceae f − m Staphylococcus g + s Phascolarctobacteriumg g Streptococcaceae f − m Staphylococcus s − s Phascolarctobacterium sepidermidis faecium g Streptococcus g − m Streptococcus s − sLactobacillaceae f + gordonii g Streptococcus g − m Streptococcus s − sDorea s thermophilus formicigenerans g Clostridium g + m Streptococcuss + s Sutterella g parasanguinis g Clostridium g + m Enterococcus g + sPseudobutyrivibrio g + g Actinobacteria c − m Aerococcus g + sBacteroides s caccae g Actinobacteria c − m Gemella g − sVerrucomicrobiales o + g Lachnospira g + m Atopobium g − sVerrucomicrobia p + g Lachnospira s − m Bacillales o + sOxalobacteraceae f − pectinoschiza g Lachnospira s − m Clostridioidess + s Burkholderiales o + pectinoschiza difficile g Betaproteobacteria c− m Erysipelatoclostridium s + s Coriobacteriaceae f + ramosum gBetaproteobacteria c − m Lactobacillus g − s Coriobacteriia c + gDeltaproteobacteria c − m Lactobacillus s + s Coriobacteriales o +salivarius g Asaccharospora s − m Lactobacillus s − s Bacteroides sirregularis vaginalis acidifaciens g Veillonellaceae f − mCorynebacteriaceae f + s Blautia luti s + g Veillonellaceae f − mActinomyces g − s Bacilli c + g Clostridiaceae f + m Actinomyces s + sBacteroides sp. s + odontolyticus AR20 g Clostridiaceae f + mBifidobacterium g + s Bacteroides sp. s + AR29 g Phascolarctobacterium g− m Corynebacterium g + s Collinsella g + g Phascolarctobacterium g − mCorynebacterium s + s Erysipelotrichaceae f + sp. gPhascolarctobacterium s − m Propionibacterium g + s Roseburia s faeciumintestinalis g Lactobacillaceae f + m Cutibacterium s + s Bacteroidaleso − acnes g Dorea s − m Mycobacteriaceae f + s Rikenellaceae fformicigenerans g Dorea s − m Mycobacterium g − s Shuttleworthia g −formicigenerans g Sutterella g − m Actinomycetales o − s Clostridia c +g Pseudobutyrivibrio g + m Rothia s − s Clostridiales o + dentocariosa gPseudobutyrivibrio g + m Actinomycetaceae f − s Lachnospiraceae f + gBacteroides s − m Methanobacteriales o − s Peptostreptococcaceae f +caccae g Bacteroides s − m Methanobacteriaceae f − s Lactobacillales o +caccae g Verrucomicrobiales o + m Methanobrevibacter g − s Dorea g + gHoldemania g + m Methanobrevibacter s − s Desulfovibrionaceae f smithiig Holdemania g + m Gardnerella g − s Bacteroidia c − g Holdemania s + mGardnerella s − s Actinobacteria p − filiformis vaginalis g Holdemanias + m Peptococcus g + s Verrucomicrobiae c + filiformis g Fibrobacteresp + m Solanales o + s Verrucomicrobiaceae f + g Verrucomicrobia p + mSphingomonas g s Anaerostipes g + g Oxalobacteraceae f + m Bacteroidess + s Desulfovibrionales o eggerthii g Burkholderiales o − m Alistipesputredinis s + s Oscillospiraceae f g Burkholderiales o − m Odoribacters + s Faecalibacterium g + splanchnicus g Coriobacteriaceae f − mPrevotella bivia s + s Alistipes g g Eggerthella g + m Prevotelladisiens s + s Akkermansia g + g Coriobacteriia c − m Alphaproteobacteriac − s Anaerotruncus g + g Coriobacteriales o − m Euryarchaeota p − sSubdoligranulum g + g Bacteroides s − m Gemella s − s Blautia wexleraes + acidifaciens morbillorum g Blautia luti s − m Veillonella g + sMoryella g g Blautia luti s − m Veillonella parvula s + sErysipelotrichia c + g Bacilli c − m Epsilonproteobacteria c − sErysipelotrichales o + g Bacteroides sp. s + m Bifidobacteriaceae f − sRuminococcaceae f + AR20 g Bacteroides sp. s + m Propionibacteriacea f +s Clostridiales f f + AR20 XIII. Incertaee Sedis g Bacteroides sp. s − mMollicutes c + s Blautia g + AR29 g Bacteroides sp. s − m Eggerthia s +s Roseburia sp. s + AR29 catenaformis 11SE39 g Collinsella g − mLeptotrichia g + s Blautia faecis s + g Collinsella g − m Rothia g − sSelenomonadales o − g Oscillospira g + m Parvimonas micra s + sAcidaminococcaceae f g Oscillospira g + m Streptophyta p + sNegativicutes c − g Erysipelotrichaceae f − m Bilophila g + sStreptococcus sp. s + BS35a g Roseburia s − m Bilophila s + sFlavonifractor g intestinalis wadsworthia g Roseburia s − m Veillonellaatypica s − s Sutterellaceae f + intestinalis g Bacteroidales o + mCorynebacterium s + s Anaerostipes sp. s + glucuronolyticum 5_1_63FAA gBacteroidales o + m Dialister g − s Fusicatenibacter s + saccharivoransg Rikenellaceae f + m Dialister s − s Fusicatenibacter g + pneumosintesg Rikenellaceae f + m Sutterella s − s Peptoclostridium g +wadsworthensis g Shuttleworthia g − m Brevundimonas g + sErysipelatoclostridium g + g Clostridia c + m Bradyrhizobiaceae f + sCampylobacter g + g Clostridia c + m Sphingomonadaceae f sFlavobacterium g + g Clostridiales o + m Rothia s − s Pseudomonas g −mucilaginosa g Clostridiales o + m Butyrivibrio s − s Rhizobiales o +crossotus g Lachnospiraceae f − m Abiotrophia g + s Bradyrhizobium g + gLachnospiraceae f − m Granulicatella s − s Rhizobium g − adiacens gPeptostreptococcaceae f + m Abiotrophia s + s Mesorhizobium s −defectiva loti g Peptostreptococcaceae f + m Parabacteroides s + sMethylobacterium g + merdae g Lactobacillales o − m Bacteroides s − sMoraxellaceae f + stercoris g Dorea g − m Lautropia g + s Acinetobacterg + g Dorea g − m Lactobacillus s + s Neisseriaceae f + crispatus gDesulfovibrionaceae f − m Flavobacteriaceae f + s Neisseria g + gBacteroidia c + m Actinobacillus s + s Neisseria mucosa s + porcinus gBacteroidia c + m Pantoea g + s Neisseria s + macacae g Actinobacteria p− m Chryseobacterium g − s Ochrobactrum g + g Actinobacteria p − mBergeyella g + s Enterobacteriaceae f − g Verrucomicrobiae c + mCorynebacterium s − s Citrobacter g − ulcerans g Verrucomicrobiaceae f +m Phyllobacteriaceae f s Enterobacter g − g Fibrobacteria c + mPseudomonadales o + s Klebsiella g − g Fibrobacteraceae f + mCampylobacteraceae f − s Kluyvera g − g Anaerostipes g − m Tessaracoccusg + s Proteus g g Anaerostipes g − m Kluyvera georgiana s − s Serratiag + g Desulfovibrionales o − m Collinsella s + s Pasteurellaceae f +aerofaciens g Oscillospiraceae f + m Caulobacteraceae f + sActinobacillus g + g Oscillospiraceae f + m Comamonadaceae f − sHaemophilus g + g Faecalibacterium g − m Delftia g − s Haemophilus s +influenzae g Fibrobacterales o + m Enterococcaceae f + s Haemophilus s +parainfluenzae g Alistipes g + m Rhizobiaceae f − s Parabacteroides s −distasonis g Alistipes g + m Gemella sp. 933-88 s + s Campylobacter s +ureolyticus g Akkermansia g + m Bifidobacteriales o − s Porphyromonas g− g Akkermansia s + m Micrococcales o − s Prevotella g − muciniphila gHespellia g + m Corynebacteriales o + s Fusobacterium g + g Hespelliag + m Propionibacteriales o + s Fusobacterium s + nucleatum gAnaerotruncus g + m Mogibacterium g − s Gammaproteobacteria c − gAnaerotruncus g + m Aerococcus s + s Peptostreptococcus g −christensenii g Marvinbryantia g + m Dorea longicatena s + s Finegoldiamagna s − g Marvinbryantia g + m Staphylococcaceae f + sPeptostreptococcus s − anaerobius g Subdoligranulum g − mEnterobacterales o − s Micrococcaceae f − g Flavonifractor s + mCandidatus p − s Micrococcus g + plautii Saccharibacteria g Bacteroidess − m Solobacterium s − s Micrococcus s − finegoldii moorei luteus gLactonifactor s + m Granulicatella g − s Staphylococcus g +longoviformis g Roseburia s − m Flavobacteriia c + s Staphylococcus s +inulinivorans aureus g Roseburia s − m Methylobacteriaceae f − sStaphylococcus s + inulinivorans epidermidis g Blautia s − mBurkholderiaceae f + s Deinococcus- p + wexlerae Thermus g Blautia s − mSolobacterium g − s Streptococcus s + wexlerae gordonii g Lactonifactorg + m Olsenella g − s Streptococcus s + thermophilus g Moryella g + mPseudomonadaceae f − s Streptococcus s + parasanguinis g Adlercreutzias + m Pasteurellales o + s Enterococcus g + equolifaciens gAdlercreutzia s + m Catenibacterium g + s Aerococcus g + equolifaciens gAdlercreutzia g + m Granulicatella s − s Gemella g + elegans gAdlercreutzia g + m Finegoldia g + s Bacillales o + g Erysipelotrichia c− m Anaeroglobus g − s Bacillus g − g Erysipelotrichales o − mAnaeroglobus s − s Lysinibacillus s + geminatus sphaericus gRuminococcaceae f + m Megamonas g − s Lactobacillus g + gRuminococcaceae f + m Anaerococcus g + s Corynebacteriaceae f + gClostridiales f f + m Porphyromonadaceae f + s Actinomyces g − XIII.Incertae Sedis g Clostridiales f f + m Prevotellaceae f − s Actinomycess − XIII. Incertae odontolyticus Sedis g Acidaminococcus s − mMethanobacteria c − s Bifidobacterium g sp. D21 g Blautia g − mVaribaculum s + s Brevibacterium g − cambriense g Blautia g − mCorynebacterium s + s Corynebacterium g + spheniscorum g Roseburia sp. s− m Peptococcaceae f − s Corynebacterium s + 11SE39 diphtheriae gRoseburia sp. s − m Bacillaceae f + s Corynebacterium s − 11SE39 sp. gBacteroides sp. s − m Aerococcaceae f + s Propionibacterium g − D22 gAlistipes sp. s + m Carnobacteriaceae f + s Cutibacterium s − RMA 9912acnes g Blautia sp. Ser8 s − m Megasphaera s − s Mycobacteriaceae f −micronuciformis g Blautia faecis s + m Propionibacterium s − sMycobacterium g − sp. MSP09A g Blautia faecis s + m Flavobacteriales o +s Rhodococcus g + g Selenomonadales o − m Fusobacteriaceae f − sRhodococcus s + erythropolis g Selenomonadales o − m Sphingomonadaleso + s Actinomycetales o − g Acidaminococcaceae f − m Caulobacterales o +s Rothia s − dentocariosa g Acidaminococcaceae f − m Bacteroides s + sActinomycetaceae f − massiliensis g Negativicutes c − m Neisseriales o +s Gardnerella g + g Negativicutes c − m Campylobacterales o − sGardnerella s + vaginalis g Eggerthella sp. s + m Subdoligranulum s + sHalomonas g + HGA1 variabile g Streptococcus s − m Alistipes finegoldiis − s Globicatella g − sp. BS35a g Flavonifractor g + m Bifidobacteriums + s Globicatella s − longum sanguinis g Flavonifractor g + m Dialisterinvisus s − s Phyllobacterium g g Sutterellaceae f − m Peptoniphilus sp.s + s Alistipes s 2002-2300004 putredinis g Sutterellaceae f − mSutterella s + s Odoribacter s stercoricanis splanchnicus g Anaerostipess − m Oribacterium g − s Porphyromonas s − sp. 5_1_63FAA asaccharolyticag Anaerostipes s − m Porphyromonas s − s Prevotella s − sp. 5_1_63FAAuenonis buccalis g Fusicatenibacter s − m Odoribacter g − s Prevotelladisiens s − saccharivorans g Fusicatenibacter s − m Roseburia hominis s− s Alphaproteobacteria c + saccharivorans g Blautia sp. s − m Roseburiafaecis s + s Halomonadaceae f + YHC-4 g Intestinimonas g + m Dialisters + s Arcanobacterium g + micraerophilus g Intestinimonas g + mBacteroides s + s Gemella s + plebeius morbillorum g Fusicatenibacter g− m Bacteroides s + s Rhizobium etli s + coprocola g Fusicatenibacter g− m Parabacteroides s + s Veillonella g + goldsteinii g Eisenbergiella g− m Bacteroides s + s Veillonella s + intestinalis parvula gEisenbergiella s − m Peptostreptococcus s − s Epsilonproteobacteria c +tayi stomatis g Candidatus g + m Peptoniphilus sp. s sPropionibacteriaceae f − Soleaferrea gpac018A g Peptoclostridium g − mBacteroides sp. s + s Helcococcus g − XB12B g Asaccharospora g − mParabacteroides g + s Xanthomonadaceae f − g Erysipelatoclostridium g −m Barnesiella g − s Fusobacteria p + g Erysipelatoclostridium g − mHowardella g − s Leptotrichia g − g Campylobacter g − m Streptococcussp. s − s Rothia g − 11aTha1 g Achromobacter g − m Alloscardovia g sActinomyces s − neuii g Flavobacterium g − m Alloscardovia s sCutibacterium s + omnicolens avidum g Pseudomonas g + m Veillonellarogosae s − s Propionimicrobium s + lymphophilum g Rhizobiales o + mMegamonas s − s Anaerococcus s + funiformis hydrogenalis gBradyrhizobium g + m Alistipes sp. EBA6- s − s Peptoniphilus s + 25cl2lacrimalis g Moraxella g − m Bacteroides sp. s − s Anaerococcus s +EBA5-17 lactolyticus g Neisseriaceae f − m Oscillibacter g − sParvimonas s + micra g Neisseria g − m Alistipes sp. s − s Anaerococcuss + NML05A004 prevotii g Neisseria s − m Barnesiella s − s Anaerococcuss mucosa intestinihominis tetradius g Neisseria s − m Parasutterella s +s Microbacterium g − macacae excrementihominis g Alcaligenaceae f + mPorphyromonas s s Dermabacter g + bennonis g Ochrobactrum g + mSynergistetes p − s Dermabacter s + hominis g Enterobacteriaceae f − mClostridiales f XI. f + s Corynebacterium s − Incertae Sedisglucuronolyticum g Citrobacter g − m Parvimonas g − s Dialister g − gKlebsiella g − m Tenericutes p + s Stenotrophomonas g − g Kluyvera g − mDelftia lacustris s + s Brevundimonas g − g Proteus g + m Butyricimonasg + s Bradyrhizobiaceae f + g Proteus s + m Paraprevotella g + sRhodospirillaceae f + mirabilis g Pasteurellaceae f − m Parasutterellag + s Corynebacterium s − argentoratense g Pasteurellaceae f − mEnterorhabdus g + s Brachybacterium g + g Actinobacillus g + mBacteroides clarus s + s Rothia s + mucilaginosa g Haemophilus g − mBifidobacterium s − s Granulicatella s + kashiwanohense adiacens gHaemophilus g − m Lautropia sp. TeTO s + s Bacteroides s − stercoris gHaemophilus s + m Anaerostipes s − s Lactobacillus s + influenzae hadruscrispatus g Haemophilus s − m Synergistia c − s Ralstonia g +parainfluenzae g Haemophilus s − m Synergistales o − s Flavobacteriaceaef − parainfluenzae g Bacteroides s + m Synergistaceae f − sActinobacillus s + fragilis porcinus g Bacteroides s + mAnaerosporobacter g − s Meiothermus s + fragilis silvanus gParabacteroides s − m Lactobacillus sp. s − s Pantoea g − distasonisBL302 g Parabacteroides s − m Campylobacter sp. s − s Anaerococcus s +distasonis 10_1_50 octavius g Campylobacter s + m Lactobacillus sp. s −s Kocuria g + gracilis 7_1_47FAA g Campylobacter s + m Veillonella sp.oral s + s Trueperella s − ureolyticus taxon 780 bernardiae gButyrivibrio g + m Anaerobacillus g + s Chryseobacterium g − gPorphyromonas g − m Actinomyces sp. s − s Meiothermus g + oral taxon 175g Prevotella g − m Peptococcus sp. s − s Facklamia g + oral taxon 168 gFusobacterium g + m Streptococcus sp. s − s Facklamia sp. s − oral taxonG59 164-92 g Fusobacterium s + m Stomatobaculum s + s Mesorhizobium g −mortiferum longum g Fusobacterium s + m Bacteroides s + sPhyllobacteriaceae f − nucleatum stercorirosoris g Fusobacterium s + mBlautia stercoris s + s Kocuria s + periodonticum rhizophila gDesulfovibrio s + m Alistipes sp. HGB5 s − s Pseudomonadales o − piger gMegasphaera g − m Bacteroides sp. s + s Campylobacteraceae f + SLC1-38 gWeeksella g − m Lactobacillus sp. s + s Tessaracoccus g + Akhmro1 gWeeksella s − m Veillonella sp. s − s Kluyvera s − virosa CM60 georgianag Gammaproteobacteria c − m Actinomyces sp. s − s Collinsella s + ICM54aerofaciens g Peptostreptococcus g + m Bifidobacterium sp. s + sActinobaculum g + MSX5B g Finegoldia s − m Campylobacter sp. s − sCaulobacteraceae f − magna FOBRC15 g Finegoldia s − m Fusobacterium sp.s + s Bacillus s + magna AS2 pseudofirmus g Peptostreptococcus s + mFusobacterium sp. s − s Comamonadaceae f + anaerobius CM21 gStaphylococcus g − m Bradyrhizobium sp. s + s Delftia g + 68A4SAPT gStaphylococcus s − m Delftia sp. BN- s − s Enterococcaceae f + simulansSKY3 g Deinococcus- p + m Methylobacterium s s Rhizobiaceae f − Thermussp. RK-2008-1 g Streptococcus s + m Staphylococcus sp. s + s Gemella sp.933- s + gordonii C9I2 88 g Streptococcus s − m Megasphaera sp. s − sMicrococcales o − thermophilus UPII 199-6 g Streptococcus s − mCoprobacter s + s Corynebacteriales o + thermophilus fastidiosus gStreptococcus s + m Actinomyces sp. s − s Propionibacteriales o −parasanguinis ICM58 g Enterococcus g + m Leptotrichiaceae f + sBrevibacteriaceae f − g Enterococcus s + m Faecalibacterium s − sDermabacteraceae f + faecalis sp. canine oral taxon 147 g Lactococcuss + m Lachnoanaerobaculum g − s Microbacteriaceae f − lactis gLactococcus s + m Streptococcus sp. s + s Bosea g − lactis GMD6S gAerococcus g + m Stomatobaculum g + s Achromobacter s + xylosoxidans gGemella g − m Solobacterium sp. s − s Propionibacterium s − S4-A19 sp.V07/12348 g Atopobium g − m Megasphaera s − s Aerococcus s −massiliensis christensenii g Atopobium s + m Streptococcus sp. s + sLactobacillus s − minutum 2011_Oral_MS_A3 fornicalis g Bacillales o − mVeillonella sp. s − s Dorea longicatena s + 2011_Oral_VSA_D3 g Bacillusg + m Eggerthia g + s Staphylococcaceae f + g Clostridioides s − mAlloprevotella g − s Enterobacterales o − difficile gErysipelatoclostridium s − m Finegoldia sp. S8 s − s Candidatus p +ramosum F7 Saccharibacteria g Lactobacillus g + m Finegoldia sp. S9 s +s Pseudoglutamicibacter s − AA1-5 albus g Lactobacillus s − mCoprobacter g + s Solobacterium s − acidophilus moorei g Lactobacilluss + m Staphylococcus sp. s + s Granulicatella g + gasseri 3348O2 gLactobacillus s + m Terrisporobacter g − s Flavobacteriia c − reuteri gLactobacillus s + m Intestinibacter g + s Brucellaceae f + salivarius gLactobacillus s − m Peptoniphilaceae f + s Deinococcales o + vaginalis gCorynebacteriaceae f − m Tissierellia c + s Methylobacteriaceae f + gCorynebacteriaceae f − m Tissierellales o + s Burkholderiaceae f + gActinomyces g − m Veillonellales o + s Solobacterium g − g Actinomycess + m Spirochaetales o − s Actinomyces s − odontolyticus radingae gArthrobacter g − m Johnsonella g + s Xanthomonadales o − g Arthrobacters − m Spirochaetes p − s Oceanospirillales o + sp. g Bifidobacterium g −m Spirochaetia c − s Pseudomonadaceae f − g Bifidobacterium g − mBacteroides sp. s − s Pasteurellales o + XB44A g Bifidobacterium s + mPhascolarctobacterium s − s Aerosphaera g + bifidum succinatutens gBifidobacterium s + m Campylobacter s + s Aerosphaera taetra s + bifidumshowae g Bifidobacterium s + m Comamonas g + s Lactobacillus s + breveiners g Bifidobacterium s + m Neisseria flavescens s − s Finegoldia g −dentium g Brevibacterium g − m Neisseria sicca s − s Corynebacterium s +mastitidis g Corynebacterium g − m Bergeriella s − s Peptoniphilus g −denitrificans g Corynebacterium g − m Kingella oralis s + s Gallicolag + g Corynebacterium s + m Eikenella g − s Novosphingobium g +diphtheriae g Corynebacterium s + m Eikenella corrodens s − sAnaerococcus g + diphtheriae g Corynebacterium s − m Aggregatibacter s +s Brevibacterium s − sp. aphrophilus paucivorans g Propionibacterium g −m Aggregatibacter s − s Porphyromonadaceae f − segnis g Cutibacterium s− m Pasteurella g − s Prevotellaceae f + acnes g Mycobacteriaceae f − mRodentibacter s − s Corynebacterium s − pneumotropicus spheniscorum gMycobacterium g + m Fibrobacter g + s Bacillaceae f + g Rhodococcus g +m Porphyromonas s + s Carnobacteriaceae f + gingivalis g Actinomycetaleso − m Cardiobacteriaceae f + s Deinococci c + g Actinomycetales o − mDesulfobulbus g + s Propionibacterium s − sp. MSP09A g Rothia s + mSelenomonas g + s Flavobacteriales o − dentocariosa g Actinomycetaceae f− m Capnocytophaga g − s Fusobacteriia c + g Mobiluncus g − mCapnocytophaga s + s Fusobacteriales o + gingivalis g Mobiluncus s + mCapnocytophaga s + s Fusobacteriaceae f + curtisii ochracea g Mobiluncuss − m Capnocytophaga s + s Rhodospirillales o + mulieris sputigena gMycoplasmatales o + m Cyanobacteria p − s Caulobacterales o − gMycoplasmataceae f + m Streptococcus s + s Neisseriales o + mutans gMycoplasma g + m Streptococcus s − s Campylobacterales o + intermedius gMycoplasma s + m Atopobium s − s Subdoligranulum s + hominis parvulumvariabile g Ureaplasma g − m Atopobium rimae s − s Peptoniphilus sp. s −2002-38328 g Ureaplasma s − m Lactobacillus s + s Peptoniphilus sp. s +urealyticum paracasei 2002-2300004 g Methanobacteriales o + mActinomyces s + s Bacillus sp. T41 s + naeslundii g Methanobacteriaceaef + m Actinomyces s + s Fastidiosipila g − viscosus g Methanobrevibacterg + m Bifidobacterium s + s Fastidiosipila s − adolescentis sanguinis gMethanobrevibacter s + m Pseudopropionibacterium s − s Cloacibacterium s− smithii propionicum normanense g Gardnerella g + m Anaeroplasma g + sHelcococcus s − sueciensis g Gardnerella s − m Mycoplasma s + sPseudoclavibacter g − vaginalis salivarium g Peptococcus g − mMethanosphaera g + s Odoribacter g g Peptococcus g − m Methanosphaeras + s Roseburia faecis s + stadtmanae g Peptococcus s − mCardiobacterium g + s Dialister s − niger propionicifaciens g Solanaleso − m Cardiobacterium s + s Porphyromonas s − hominis somerae gBifidobacterium s − m Vagococcus g + s Pelomonas g + pseudocatenulatum gPhyllobacterium g + m Streptococcus mitis s − s Peptoniphilus sp. s −gpaco18A g Bacteroides s + m Tannerella s − s Peptoniphilus sp. s +eggerthii forsythia gpac148 g Alistipes s + m Porphyromonas s − sParabacteroides g − putredinis endodontalis g Alistipes s + m Prevotellas − s Lysinibacillus g + putredinis intermedia g Odoribacter s + mPrevotella s − s Citrobacter sp. s − splanchnicus nigrescens BW4 gOdoribacter s + m Prevotella oralis s − s Pseudomonas sp. s −splanchnicus G1116 g Porphyromonas s + m Prevotella oris s − sAnaerococcus s − asaccharolytica murdochii g Prevotella s − m Prevotellaoulorum s + s Acinetobacter sp. s + buccalis RBE2CD-114 g Prevotella s +m Actinomyces sp. s + s Streptococcus sp. s + disiens 11aTha1 gCronobacter s + m Dolosigranulum g + s Methylobacterium s − sakazakiisp. CBMB45 g Alphaproteobacteria c + m Dolosigranulum s + s Rhizobiumsp. sc-w s + pigrum g Arcanobacterium g + m Acetitomaculum g − sPelomonas s + aquatica g Arcanobacterium s + m Kingella g + sBacteroides sp. s + haemolyticum EBA5-17 g Euryarchaeota p + mMogibacterium s − s Pantoea vagans s − timidum g Veillonella g + mTerrisporobacter s − s Anaerobacillus s + glycolicusalkalidiazotrophicus g Veillonella g + m Veillonella dispar s + sBrevibacterium s − ravenspurgense g Veillonella s + m Leptotrichia s − sParasutterella s + parvula buccalis excrementihominis gEpsilonproteobacteria c − m Porphyromonas s + s Porphyromonas s +catoniae bennonis g Bifidobacteriaceae f − m Corynebacterium s + sClostridiales f XI. f + matruchotii Incertae Sedis g Bifidobacteriaceaef − m Catonella g − s Parvimonas g + g Propionibacteriaceae f − mCatonella morbi s − s Corynebacterium s + freiburgense g Mollicutes c +m Filifactor g − s Delftia lacustris s + g Helcococcus g − mCapnocytophaga s + s Butyricimonas g granulosa g Rhodobacteraceae f − mCapnocytophaga s + s Parasutterella g + haemolytica g Leptotrichia g − mActinomyces s + s Phyllobacterium s georgiae sp. T50 g Rothia g + mActinomyces s + s Porphyromonas s − gerencseriae sp. 2024b g Actinomycess + m Actinomyces s − s Pseudoclavibacter s − neuii meyeri sp. Timone gCutibacterium s + m Actinomyces s + s Klebsiella sp. B12 s − avidumgraevenitzii g Propionimicrobium s + m Acidobacteria p − s Ochrobactrumsp. s + lymphophilum SCTS14 g Anaerococcus s + m Prevotella pallens s −s Lactobacillus sp. s hydrogenalis 7_1_47FAA g Peptoniphilus s − mCorynebacterium s − s Veillonella sp. s + lacrimalis durum oral taxon780 g Anaerococcus s + m Thermoanaerobacterales o + s Microbacterium s +lactolyticus yannicii g Parvimonas s − m Streptococcus s + sCorynebacterium s + micra peroris canis g Anaerococcus s + mStreptococcus s − s Tessaracoccus sp. s + prevotii infantis SL014B-79A gAnaerococcus s + m Alloprevotella s − s Staphylococcus s − tetradiustannerae sp. FXY54 g Anaerococcus s − m Parascardovia s − sAnaerobacillus g + vaginalis denticolens g Anaerococcus s − m Centipedag − s Corynebacterium s + vaginalis sp. NML 97-0186 g Lactobacillus s +m Centipeda s − s Actinomyces sp. s johnsonii periodontii oral taxon 175g Streptophyta p − m Eggerthella lenta s + s Peptoniphilus sp. s − oraltaxon 375 g Bilophila g − m Gemella sanguinis s + s Streptococcus sp. soral taxon G59 g Bilophila s − m Cryptobacterium g − s Brevundimonas s +wadsworthia sp. V3M6 g Dermabacter g + m Cryptobacterium s − sStomatobaculum s − curtum longum g Veillonella s + m Rothia sp. CCUG s +s Herbaspirillums s − atypica 25688 huttiense g Corynebacterium s + mMannheimia s − s Peptoniphilus sp. s + glucuronolyticum granulomatis 7-2g Dialister g − m Mogibacterium s − s Ralstonia sp. s + pumilumS2.MAC.005 g Dialister g − m Mycoplasma s + s Stenotrophomonas s +falconis sp. KITS-1 g Dialister s + m Mycoplasma s − s Negativicoccus g− pneumosintes subdolum g Sneathia s − m Catenibacterium s + s Shinellasp. DR33 s − sanguinegens mitsuokai g Sutterella s + m Anaerovorax g − sAcinetobacter sp. s − wadsworthensis C-S-NA3 g Bradyrhizobiaceae f + mLeptotrichia s + s Stenotrophomonas s + trevisanii sp. C-S-TSA3 gRhodospirillaceae f + m Parasporobacterium g − s Veillonella sp. s −CM60 g Corynebacterium s + m Sphingobacteriia c + s Actinomyces sp. sargentoratense ICM54 g Brachybacterium g + m Cardiobacteriales o + sFusobacterium s + sp. ACB2 g Rothia s + m Filifactor alocis s − sVeillonella sp. s mucilaginosa MSA12 g Butyrivibrio s − m Leptotrichiawadei s + s Anaerococcus sp. s crossotus 8404299 g Abiotrophia g − mLeptotrichia s + s Anaerococcus sp. s + hofstadii 8405254 gGranulicatella s − m Leptotrichia shahii s + s Anaerococcus sp. s +adiacens 9401487 g Abiotrophia s − m Leptotrichia s − s Anaerococcus s +defectiva goodfellowii provencensis g Parabacteroides s + m Actinomycessp. s + s Bradyrhizobium s − merdae oral strain Hal- sp. 68A4SAPT 1065 gParabacteroides s + m Rothia aeria s − s Delftia sp. BN- s − merdae SKY3g Bacteroides s − m Victivallis g + s Methylobacterium s + stercoris sp.RK-2008-1 g Lautropia g + m Anaeroplasmatales o − s Staphylococcus s +sp. C9I2 g Lactobacillus s − m Anaeroplasmataceae f − s Megasphaera sp.s + rhamnosus UPII 199-6 g Flavobacteriaceae f − m Alysiella g + sSphingomonas s sp. 540 g Actinobacillus s + m Tannerella g − sCorynebacterium s − porcinus epidermidicanis g Pantoea g + m Scardovia g− s Trueperella g − g Anaerococcus s − m Parascardovia g − sMesorhizobium s + octavius sp. mat916 g Actinotignum s − mSphingobacteriales o + s Peptoniphilus sp. s − schaalii BV3AC2 gTrueperella s − m Chloroflexi p − s Sphingobium sp. s − bernardiae LC341g Bergeyella g − m Acidobacteriia c − s Anaerococcus sp. s − PH9 gCorynebacterium s + m Acidobacteriales o + s Leptotrichiaceae f −ulcerans g Facklamia g + m Desulfobacterales o + s Faecalibacterium s +sp. canine oral taxon 147 g Facklamia sp. s + m Desulfobulbaceae f + sMurdochiella g + 164-92 g Facklamia sp. s + m Thermodesulfobiaceae f + sVaribaculum sp. s + 1440-97 CCUG 45114 g Phyllobacteriaceae f + mLeptotrichia s + s Dermabacter sp. s − genomo sp. C1 HFH0086 gPseudomonadales o − m Megasphaera s − s Propionibacterium s + genomo sp.C1 sp. KPL2005 g Campylobacteraceae f − m Scardovia wiggsiae s − sStomatobaculum g + g Tessaracoccus g − m Selenomonas s + sNegativicoccus s − genomo sp. P5 sp. S5-A15 g Kluyvera s − mVictivallaceae f + s Corynebacterium s + georgiana sp. jw37 gCollinsella s − m Lentisphaerae p + s Veillonella sp. s + aerofaciens2011_Oral_VSA_D3 g Collinsella s − m Neisseria s + s Alloprevotella g +aerofaciens bacilliformis g Campylobacter s − m Actinomyces s + sPeptoniphilus sp. s − hominis dentalis DNF00192 g Actinobaculum g − mVictivallales o + s Stenotrophomonas s + sp. N017 g Bifidobacterium s +m Bacteroides nordii s + s Bradyrhizobium s + gallicum sp. CCBAU 53380 gComamonadaceae f + m Anaerolineae c − s Anaerococcus sp. s − S8 87-3 gDelftia g − m Capnocytophaga s − s Anaerococcus sp. s − sp. AHN9576 S9PR-16 g Enterococcaceae f + m Capnocytophaga s + s Finegoldia sp. S9 s +sp. AHN9687 AA1-5 g Atopobium s + m Bergeriella g − s Peptococcus sp.s + vaginae S9 Pr-12 g Slackia g − m Capnocytophaga s − s Peptoniphilussp. s − sp. AHN9756 S9 PR-13 g Gemella sp. s − m Streptococcus s + sRalstonia sp. A52 s − 933-88 dentirousetti g Bifidobacteriales o − mParabacteroides s − s Staphylococcus s + johnsonii sp. 334802 gBifidobacteriales o − m Opitutae c − s Terrisporobacter g gMicrococcales o − m Puniceicoccales o − s Intestinibacter g + RCorynebacteriales o − m Aggregatibacter g + s Peptoniphilaceae f − RCorynebacteriales o − m Prevotella s + s Tissierellia c − nanceiensis RPropionibacteriales o − m Veillonella sp. s + s Tissierellales o −6_1_27 g Brevibacteriaceae f − m Desulfovibrio sp. s + s Veillonellaleso − 3_1_syn3 g Dermabacteraceae f − m Actinomyces s − s Selenomonadaceaef + massiliensis g Microbacteriaceae f − m Lachnoanaerobaculum s − sCutibacterium g + saburreum g Nocardiaceae f + m Bacteroides sp. s − sDeinococcus g + 3_1_40A g Achromobacter s − m Gordonibacter s + sLactococcus g + xylosoxidans pamelaeae g Mogibacterium g − m Atopobiumsp. s − s Johnsonella g − DMCT15023 g Aerocoecus s + m Olsenella sp. s −s Deinococcaceae f + christensenii F0004 g Eremococcus s + m Bacteroidessp. s − s Comamonas g − coleocola DJF_B097 g Lactobacillus s − mActinomyces oris s − s Selenomonas g − fornicalis g Dorea s − mButyricimonas s + s Capnocytophaga g + longicatena virosa g Dorea s − mAnaerotruncus sp. s + s Cyanobacteria p + longicatena NML 070203 gOligella g + m Leptotrichia s + s Actinomyces s − hongkongensis viscosusg Oligella s + m Chitinophagaceae f + s Prevotella s − urethralisoulorum g Staphylococcaceae f − m Parabacteroides s − s Dolosigranulum g− gordonii g Enterobacterales o − m Prevotella s + s Dolosigranulum s −aurantiaca pigrum g Candidatus p − m Neisseria s + s Corynebacterium s −Saccharibacteria shayeganii matruchotii g Pseudoglutamicibacter s − mLachnoanaerobaculum s − s Actinomyces s − albus umeaense georgiae gSolobacterium s − m Rhizobium sp. T45 s − s Actinomyces s − mooreigerencseriae g Veillonella ratti s + m Odoribacter laneus s − sAcidobacteria p − g Lactobacillus s + m Gordonibacter g + sCorynebacterium s − jensenii durum g Granulicatella g − m Slackia sp.NATTS s + s Streptococcus s − peroris g Flavobacteriia c − mFretibacterium s − s Centipeda g − fastidiosum g Brucellaceae f + mOribacterium sp. s − s Centipeda s − oral taxon 078 periodontii gDeinococcales o + m Prevotella sp. oral s + s Sphingobacteriia c − taxon299 g Solobacterium g + m Leptotrichia sp. s + s Leptotrichia s + oraltaxon 225 wadei g Actinomyces s − m Oribacterium sp. s − s Leptotrichias − radingae oral taxon 102 hofstadii g Actinomyces s − m Alloprevotellarava s − s Sphingobacteriales o − turicensis g Olsenella g + mPrevotella sp. WAL s + s Chloroflexi p − 2039G g Xanthomonadales o + mNeisseria skkuensis s + s Acidobacteriia c + g Pseudomonadaceae f + mActinomyces sp. s + s Acidobacteriales o − oral taxon 178 gPasteurellales o − m Capnocytophaga s − s Selenomonas s − sp. oral taxon338 genomo sp. P5 g Pasteurellales o − m Actinomyces sp. s − sActinomyces s − oral taxon 170 dentalis g Catenibacterium g − mActinomyces sp. s − s Aggregatibacter g + oral taxon 448 gCatenibacterium g − m Capnocytophaga s + s Lachnoanaerobaculum s − sp.oral taxon 335 saburreum g Globicatella s + m Capnocytophaga s + sRhizobium sp. s − sulfidifaciens sp. oral taxon 336 T45 g Aerosphaera g− m Desulfobulbus sp. s + s Actinomyces sp. s − oral taxon 041 oraltaxon 448 g Aerosphaera s − m Leptotrichia sp. s + s Brevundimonas s +taetra oral taxon 223 sp FXJ8.080 g Lactobacillus s + m Oribacterium sp.s − s Pseudomonas sp. s + iners oral taxon 108 KB23 g Finegoldia g + mPrevotella sp. oral s + s Lysinibacillus sp. s taxon G60 SJ2SN2 gFinegoldia g + m Shuttleworthia sp. s − s Rothia sp. THG- s + oral taxonG69 N7 g Anaeroglobus g + m Streptococcus sp. s + s Bacteroides sp. s −oral taxon G63 J1511 g Anaeroglobus s + m Tannerella sp. oral s + sMoraxella s − geminatus taxon HOT-286 catarrhalis gPseudoglutamicibacter s + m Parvimonas sp. oral s − s Enterobacter s +cumminsii taxon 393 cloacae g Megamonas g − m Caldicoprobacteraceae f +s Morganella g g Corynebacterium s − m Leptotrichia sp. s + s Morganellas mastitidis PG10 morganii g Peptoniphilus g − m Leptotrichia sp. s − sAeromonas g − PTE15 g Gallicola g − m Lactobacillus sp. s − sLeuconostoc g + NRCT-KU 1 g Novosphingobium g − m Methylobacterium s − sWeissella g + longum g Anaerococcus g − m Capnocytophaga s − sRhodocyclaceae f − sp. CM59 g Sneathia g − m Mogibacterium sp. s − sPseudomonas s − CM50 monteilii g Thalassospira g + m Mogibacterium sp. s− s Leuconostocaceae f + CM96 g Brevibacterium s − m Selenomonas sp. s −s Aeromonadaceae f − paucivorans CM52 g Eremococcus g + m Actinomycessp. s + s Aeromonadales o − ICM34 g Porphyromonadaceae f + m Actinomycessp. s − s Azospira g + ICM41 g Porphyromonadaceae f + m Actinomyces sp.s − s Raoultella g − ICM47 g Prevotellaceae f − m Atopobium sp. s − sPlanococcaceae f + ICM57 g Prevotellaceae f − m Fusobacterium sp. s + sAcidobacteriaceae f − CM22 g Lactobacillus s − m Oribacterium sp. s − sRhodocyclales o − sp. CR-609S CM12 g Facklamia s − m Lachnoanaerobaculums + s Paucibacter g − hominis sp. OBRC5-5 g Actinomyces s + mLachnoanaerobaculum s − s Paucibacter sp. s − hongkongensis sp. MSX33186 g Lactobacillus s + m Brevundimonas sp. s + s Pseudomonas sp. s −coleohominis FXJ8.080 a101-18-2 g Methanobacteria c + m Vagococcus sp.s + s Pseudomonas sp. s − SIX2(2011) a111-5 g Varibaculum g − mMoraxella sp. s − s Finegoldia sp. s − WB19-16 BV3C29 g Varibaculum g −m Lachnoanaerobaculum s + s Comamonas s − orale jiangduensis gVaribaculum s − m Actinomyces sp. s − s Propionibacterium s − cambrienseZSY-1 sp. KPL1844 g Peptococcaceae f + m Pseudomonas sp. s − sHyphomicrobiaceae f + KB23 g Peptococcaceae f + m Lysinibacillus sp. s +s Shewanella g + SJ2SN2 g Bacillaceae f + m Fusobacterium sp. s + sLysobacter g − OBRC1 g Aerococcaceae f + m Veillonella sp. JL-2 s sCaulobacter g + g Carnobacteriaceae f − m Neisseria oralis s + sPlanctomycetales o + g Megasphaera s + m Veillonella s − s Gemmata g −micronuciformis tobetsuensis g Acidaminococcus s − m Actinomyces sp. s +s Planctomycetaceae f + intestini ph3 g Veillonella s − m Neisseria sp.s + s Elizabethkingia s − montpellierensis 104(2012) meningoseptica gDeinococci c + m Phascolarctobacterium s − s Brevundimonas s + sp. 377diminuta g Dialister sp. s − m Parabacteroides s + s Xanthomonas g +E2_20 faecis g Dialister sp. s − m Streptococcus sp. s − sAcetobacteraceae f − E2_20 2011_Oral_MS_H4 g Propionibacterium s − mVeillonella sp. s + s Acinetobacter s + sp. MSP09A 2011_Oral_VSA_B12baumannii g Flavobacteriales o − m Rothia sp. THG-N7 s + s Moraxella s +nonliquefaciens g Propionimicrobium g + m Capnocytophaga s + s Zymomonasg − sp. HS5_2W_I24 g Fusobacteriaceae f + m Actinomyces sp. s − sAeromonas s − S6-Spd3 salmonicida g Rhodospirillales o + m Lentisphaeriac + s Streptococcus s + sobrinus g Rhodobacterales o − m Candidatus g +s Bacillus s − Saccharimonas megaterium g Bacteroides s − m Bacteroidessp. s + s Geobacillus s − massiliensis J1511 stearothermophilus gNeisseriales o − m Tessaracoccus s + s Kurthia g − lapidicaptus gCampylobacterales o − m Fretibacterium g − s Nocardioides g − gSubdoligranulum s − m Robinsoniella sp. s + s Pseudonocardia g +variabile KNHS210 g Alistipes s − m Butyricimonas s + s Streptomyces g −finegoldii faecihominis g Alistipes s − m Butyricimonas s + s Gordoniaterrae s − finegoldii paravirosa g Bifidobacterium s − m Alistipes inopss + s Streptomycetaceae f − longum g Bifidobacterium s − m [Collinsella]s − s Pseudonocardiaceae f − longum massiliensis g Dialister invisus s −n Bacteroidaceae f + s Solanaceae f − g Peptoniphilus s + n Bacteroidesg + s Solanum s − sp. 2002-38328 lycopersicum g Peptoniphilus s − nBacteroides s + s Solanum g − sp. 2002- vulgatus 2300004 g Actinomycessp. s − n Roseburia g + s Basidiomycota p − 2002-2301122 g Sutterella s− n Faecalibacterium s + s Acidovorax g − stercoricanis prausnitzii gFastidiosipila g − n Herbaspirillum g + s Acidothermus g − gFastidiosipila s − n Bacteroidetes p + s Sphingobacterium g − sanguinisg Helcococcus s − n Proteobacteria p − s Turicella otitidis s +sueciensis g Bacteroides sp. s + n Firmicutes p + s Staphylococcus s −35AE37 saprophyticus g Pseudoclavibacter g − n Sarcina g + sMicrolunatus g + g Oribacterium g + n Streptococcaceae f + s Rhodoplanesg + g Porphyromonas s + n Streptococcus g + s Janthinobacterium g +uenonis g Odoribacter g + n Clostridium g s Cutibacterium s + granulosumg Odoribacter g + n Actinobacteria c − s Microbacterium s − lacticum gCorynebacterium s + n Lachnospira g s Exiguobacterium g − sp. 2300500 gBacteroides s + n Lachnospira s s Variovorax g − salyersiaepectinoschiza g Bacteroides s + n Betaproteobacteria c − s Dietzia g +salyersiae g Roseburia s − n Deltaproteobacteria c + s Blastococcus s −hominis aggregatus g Roseburia s − n Veillonellaceae f + s Acinetobacters + hominis radioresistens g Roseburia s − n Clostridiaceae f + sPaenibacillus g − faecis g Roseburia s − n Lactobacillaceae f − sChlamydiales o − faecis g Dialister s − n Dorea s + s Pseudomonas s −propionicifaciens formicigenerans citronellolis g Dialister s − nPseudobutyrivibrio g + s Malassezia g − micraerophilus g Bacteroides s −n Verrucomicrobiales o + s Leucobacter g + plebeius g Parabacteroides s− n Verrucomicrobia p + s Dermacoccus g + goldsteinii g Alistipes shahiis + n Oxalobacteraceae f + s Malassezia s − restricta g Alistipes shahiis + n Burkholderiales o − s Sphingobacteriaceae f − g Bacteroides s + nCoriobacteriaceae f + s Acidimicrobiia c + intestinalis g Pelomonas g +n Coriobacteriia c + s Acidimicrobiales o + g Peptostreptococcus s + nCoriobacteriales o + s Rubrobacteria c − stomatis g Bergeyella sp. s − nBlautia luti s + s Pseudonocardiales o − AF14 g Bacteroides s + nBacilli c + s Streptomycetales o − dorei g Bacteroides s + n Bacteroidessp. s + s Frankiales o − dorei AR20 g Peptoniphilus s − n Bacteroidessp. s s Nocardioidaceae f − sp. gpac018A AR29 g Peptoniphilus s − nCollinsella g + s Promicromonosporaceae f − sp. gpac148 g Bacteroidessp. s + n Roseburia s + s Dietziaceae f + XB12B intestinalis g Moryellas − n Bacteroidales o + s Nakamurellaceae f − indoligenes gParabacteroides g − n Rikenellaceae f + s Acidothermaceae f − gParabacteroides g − n Shuttleworthia g − s Marmoricola g + g Prevotellas − n Clostridia c + s Marmoricola s − timonensis aurantiacus gBarnesiella g + n Clostridiales o + s Facklamia s + tabacinasalis gBarnesiella g + n Lachnospiraceae f + s Cytophagaceae f − g Howardellag + n Peptostreptococcaceae f + s Hymenobacter g − g Citrobacter sp. s −n Lactobacillales o + s Frigoribacterium g − BW4 g Anaerococcus s − nDorea g + s Acinetobacter s − murdochii ursingii g Arcanobacterium s + nBacteroidia c + s Dyadobacter g − sp. NML 06501 g Cronobacter g + nActinobacteria p − s Roseomonas g − g Streptococcus s + nVerrucomicrobiae c + s Geobacillus g − sp. 11aTha1 g Prevotella s − nVerrucomicrobiaceae f s Corynebacterium s + amnii capitovis gAlloscardovia g − n Anaerostipes g + s Corynebacterium s + felinum gAlloscardovia s − n Oscillospiraceae f s Verrucomicrobia f + omnicolenssubdivision 3 g Veillonella s + n Faecalibacterium g + s Alteromonadaleso + rogosae g Jonquetella s + n Alistipes g + s Gemmatimonadetes p −anthropi g Pelomonas s + n Akkermansia g + s Turicella g + aquatica gMegamonas s − n Akkermansia s + s Dermacoccaceae f + funiformismuciniphila g Alistipes sp. s + n Anaerotruncus g s Massilia g −EBA6-25cl2 g Bacteroides sp. s − n Subdoligranulum g + s Microbacteriums + EBA5-17 sp. absalar g Bacteroides sp. s + n Roseburia s + sCellulosimicrobium g − EBA5-17 inulinivorans g Paraprevotella s − nBlautia wexlerae s + s Malasseziales o − clara g Oscillibacter g + nMoryella g s Gemmatimonas g − g Oscillibacter g + n Ruminococcaceae f +s Aurantimonas g − g Alistipes sp. s + n Clostridiales f XIII. f − sSphingomonas s − NML05A004 Incertae Sedis aerolata g Alistipes sp. s + nBlautia g + s Paenibacillaceae f − NML05A004 g Brevibacterium s + nRoseburia sp. s + s Thermoactinomy f + ravenspurgense 11SE39 cetaceae gDialister s + n Blautia faecis s + s Dermacoccus sp. s − succinatiphilusEllin183 g Barnesiella s + n Selenomonadales o + s Thermomicrobiales o −intestinihominis g Barnesiella s + n Negativicutes c + s Microbacteriums − intestinihominis paraoxydans g Parasutterella s − n Streptococcussp. s + s Planctomycetes p + excrementihominis BS35a g Parasutterella s− n Flavonifractor g s Planctomycetia c + excrementihominis gPorphyromonas s + n Anaerostipes sp. s + s Chlamydiae p − bennonis5_1_63FAA g Cloacibacterium g − n Fusicatenibacter s + s Chlamydiia c −saccharivorans g Gemella s + n Fusicatenibacter g + s Skermanella g +asaccharolytica g Peptoniphilus s + n Erysipelatoclostridium g + sRoseomonas s − duerdenii cervicalis g Peptoniphilus s + n Campylobacterg − s Solirubrobacter g − koenoeneniae g Murdochiella s + nAchromobacter g + s Brachybacterium s − asaccharolytica muris gSynergistetes p + n Flavobacterium g + s Gemmatimonadetes c − gCloacibacillus g + n Pseudomonas g − s Gemmatimonadales o − gCloacibacillus s + n Rhizobiales o + s Gemmatimonadaceae f − evryensis gAtopobium sp. s − n Bradyrhizobium g − s Kocuria marina s − F0209 gClostridiales f f − n Rhizobium g + s Actinomyces s − XI. Incertaegenomo sp. C1 Sedis g Parvimonas g − n Mesorhizobium loti s + sSalinibacterium g + g Tenericutes p + n Methylobacterium g + sCryomorphaceae f − g Corynebacterium s + n Moraxellaceae f − sAurantimonadaceae f − freiburgense g Delftia lacustris s + nAcinetobacter g + s Lysobacter s − brunescens g Butyricimonas g − nMoraxella g + s Shewanellaceae f + g Bifidobacterium s + n Neisseriaceaef − s Rubellimicrobium g − sp. 120 g Brevibacterium s − n Neisseria g −s Elizabethkingia g − massiliense g Paraprevotella g + n Neisseriamucosa s − s Solirubrobacteraceae f − g Parasutterella g − n Neisseriaelongata s − s Dietzia cinnamea s − g Parasutterella g − n Neisseriamacacae s − s Fluviicola g − g Enterorhabdus g + n Alcaligenaceae f + sTrueperaceae f − g Bacteroides s + n Ochrobactrum g + s Truepera g −clarus g Bacteroides s + n Enterobacteriaceae f + s Methylobacterium s −clarus adhaesivum g Sutterella sp. s − n Citrobacter g + sXanthobacteraceae f − YIT 12072 g Bifidobacterium s + n Enterobacter g −s Patulibacteraceae f − kashiwanohense g Porphyromonas s + n Klebsiellag + s Patulibacter g − sp. 2024b g Lautropia sp. s + n Kluyvera g + sSolirubrobacter s − TeTO sp. Gsoil 921 g Pseudoclavibacter s + n Proteusg + s Sphingomonas s − sp. Timone anadarae g Anaerostipes s − nPasteurellaceae f − s Nubsella s − hadrus zeaxanthinifaciens gAnaerostipes s − n Actinobacillus g − s Skermanella s + hadrus aerolatag Synergistia c + n Haemophilus g − s Actinomycetospora g − gSynergistales o + n Haemophilus s − s Acinetobacter sp. s + influenzaeRBE2CD-76 g Synergistaceae f + n Haemophilus s + s Flavobacterium s +parainfluenzae lindanitolerans g Klebsiella sp. s − n Campylobacter s −s Sphingomonas s + B12 ureolyticus mathurensis g Anaerosporobacter g − nPorphyromonas g − s Exobasidiomycetes c − g Lactobacillus s + nPrevotella g + s Stenotrophomonas s − sp. BL302 pavanii g Ochrobactrums + n Fusobacterium g + s Mycobacterium s − sp. SCTS14 sp. 18 GUW gAnaerostipes s + n Fusobacterium s + s Pseudolabrys g − sp. 3_2_56FAAnucleatum g Lactobacillus s − n Fusobacterium s − s Bacillus safensis s− sp. 7_1_47FAA periodonticum g Peptoniphilus s + n Megasphaera g + sNubsella g − sp. oral taxon 836 g Veillonella sp. s − n Rhodopseudomonasg + s Microbacterium s − oral taxon 780 sp. GGC-P2D g Corynebacterium s− n Gammaproteobacteria c − s Dermacoccus sp. s − canis SST-20 gTessaracoccus s − n Peptostreptococcus g + s Flavobacterium s + sp.SL014B-79A sp. CS43 g Bilophila sp. s − n Finegoldia magna s + sMethylobacterium s − 4_1_30 sp. Gh-143 g Peptoniphilus s + nPeptostreptococcus s + s Solirubrobacterales o − sp. JCM 8143 anaerobiusg Anaerobacillus g − n Micrococcaceae f + s Acinetobacter s +kyonggiensis g Corynebacterium s − n Micrococcus g + s Acinetobacter sp.s + sp. NML 97- T133 0186 g Peptoniphilus s + n Micrococcus luteus s + sIamiaceae f + sp. oral taxon 375 g Streptococcus s − n Staphylococcusg + s Rummeliibacillus g − sp. oral taxon G59 g Streptococcus s − nStaphylococcus s + s Chryseomicrobium s + sp. oral taxon aureusimtechense G59 g Lactobacillus s + n Deinococcus- p + s Brevundimonas s− sp. TAB-22 Thermus sp. JW23.4a g Peptoniphilus s + n Streptococcus s −s Pseudomonas sp. s − coxii thermophilus DQ-01 g Stomatobaculum s + nStreptococcus s + s Malasseziaceae f − longum parasanguinis gBacteroides s + n Enterococcus g + s Pseudomonas sp. s − stercorirosorisPcFRB119 g Blautia stercoris s − n Enterococcus s − s Methylobacterium s− faecalis sp. 399 g Blautia stercoris s − n Lactococcus lactis s + sMethylobacterium s − sp. 57 g Peptoniphilus s − n Aerococcus g + sCytophagia c − sp. 1-14 g Peptoniphilus s − n Aerococcus urinae s − sCytophagales o − sp. 1-14 g Peptoniphilus s + n Gemella g + sPseudomonas sp. s − sp. 7-2 PcFRB072 g Ralstonia sp. s + n Bacillaleso + s Chryseomicrobium g + S2.MAC.005 g Alistipes sp. s + n Bacillus g +s Bryobacter g − HGB5 g Negativicoccus g − n Lysinibacillus s + sNovosphingobium s + sphaericus sp. THA_AIK7 g Bacteroides sp. s + nLactobacillus g − s Staphylococcus s + SLC1-38 sp. C-D-MA2 gLactobacillus s + n Lactobacillus s − s Pseudomonas sp. s + sp. Akhmro1plantarum KVS86 g Stenotrophomonas s + n Lactobacillus s + s Pseudomonassp. s + sp. C-S- reuteri PKG89 TSA3 g Actinomyces sp. s + nLactobacillus s − s Acinetobacter sp. s − ICM54 salivarius C049 gBifidobacterium s + n Corynebacteriaceae f − s Granulicella g + sp.MSX5B g Fusobacterium s − n Actinomyces g + s Mycobacterium s − sp. AS2sp. CO183 g Fusobacterium s + n Actinomyces s − s Acinetobacter s + sp.CM21 odontolyticus sp. WB22-23 g Veillonella sp. s + n Arthrobacter g +s Micrococcus sp. s + AS16 WB18-01 g Veillonella sp. s + nBifidobacterium s + s Dietzia sp. ISA13 s − MSA12 bifidum g Anaerococcuss + n Brevibacterium g − s Psychrobacter sp. s + sp. 8404299 S1-1 gAnaerococcus s − n Corynebacterium g − s Pseudomonas sp. s + sp. 8405254PDD-27b-3 g Anaerococcus s − n Corynebacterium s − s Sphingomonas s −provencensis diphtheriae sp. KOPRI 25661 g Enterococcus s − nCorynebacterium s + s Gaiella occulta s − sp. SI-4 sp. g Delftia sp. BN-s − n Propionibacterium g − s Ferruginibacter g − SKY3 g Enterococcuss + n Cutibacterium s + s Sphingobacterium s − sp. C6I11 acnes sp.HTc4-a g Brachybacterium s + n Mycobacteriaceae f + s Amnibacterium g −sp. NIO-27 g Enterobacter s + n Rhodococcus g + s Rhizobium s − sp.BS2-1 nepotum g Megasphaera s − n Rhodococcus s − s Sandaracinaceae f −sp. UPII 199-6 erythropolis g Corynebacterium s + n Actinomycetales o −s Comamonas sp. s − epidermidicanis HM_AF10 g Trueperella g − n Rothias + s Massilia sp. hp37 s − dentocariosa g Coprobacter s − n Mobiluncuss + s Defluviimonas g + fastidiosus mulieris g Coprobacter s − nGardnerella g + s Ochrobactrum sp. s − fastidiosus LC498 g Actinomycessp. s + n Gardnerella s + s Gaiellales o − ICM58 vaginalis g Jonquetellasp. s − n Peptococcus g − s Gaiellaceae f − BV3C4 g Prevotella sp. s + nHalomonas g − s Gaiella g − BV3C7 g Peptoniphilus sp. s − n Solanaleso + s Aureimonas s − BV3AC2 phyllosphaerae g Megasphaera s − nGlobicatella g − s Massilia sp. S5- s + sp. BV3C16-1 252-1 gAnaerococcus s − n Globicatella s − s Stenotrophomonas s − sp. PH9sanguinis sp. I_35- G5PA9A1 g Leptotrichiaceae f − n Sphingomonas g − sStenotrophomonas s − sp. I_63- LFP1A9B1 g Faecalibacterium s − nPhyllobacterium g s Sphingomonas s − sp. canine sp. HEXBA01 oral taxon147 g Faecalibacterium s − n Alistipes putredinis s s Chryseobacterium s− sp. canine sp. SOZ3-3181 oral taxon 147 g Murdochiella g + nOdoribacter s s Blastocatella s + splanchnicus fastidiosa gLachnoanaerobaculum g + n Porphyromonas s + s Massilia sp. s −asaccharolytica TMT4-34 g Streptococcus s + n Prevotella bivia s + sSalinibacterium s + sp. GMD6S sp. MDT1-9-1 g Varibaculum sp. s + nPrevotella buccalis s + s Blastocatella g − CCUG 45114 g Varibaculum s +n Prevotella disiens s + s Acinetobacter sp. s + sp. CCUG 45114 HD5.2 gDermabacter s + n Alphaproteobacteria c + s Sphingomonas s − sp. HFH0086sp. DS-3PS-11 g Stomatobaculum g + n Halomonadaceae f − sChryseobacterium s − sp. R064 g Actinomyces sp. s − n Euryarchaeota p +s Rhizobium sp. s − S4-C9 10II g Atopobium sp. s − n Gemella s − s Boseasp. B0.09- s − S3MV24 morbillorum 49 g Atopobium sp. s − n Rhizobiumetli s + s Sphingomonas s − S3MV26 sp. URHD0057 g Atopobium sp. s + nVeillonella g − s Exiguobacterium s − S3PFAA1-4 sp. icr3 g Dialister sp.S4- s − n Veillonella parvula s − s Jatrophihabitans g + 23 gGardnerella sp. s + n Epsilonproteobacteria c − s Chryseobacterium s −S3PF20 sp. R31 g Prevotella sp. s + n Bifidobacteriaceae f − sFlavobacterium s + S4-10 qiangtangense g Solobacterium s + nPropionibacteriaceae f − s Mycobacterium s − sp. S4-A19 sp.UNC410CL29Cvi 84 n Helcococcus g − s Pseudonocardia s + sp. ARG1

We claim:
 1. A method for characterizing a sleep-related conditionassociated with microorganisms, the method comprising: determining amicroorganism sequence dataset associated with a set of subjects, basedon microorganism nucleic acids from samples associated with the set ofsubjects, wherein the microorganism nucleic acids are associated withthe sleep-related condition; collecting, for the set of subjects,supplementary data associated with the sleep-related condition;determining at least one of a set of microbiome composition features anda set of microbiome functional features associated with the set ofsubjects, based on the microorganism sequence dataset; generating asleep-related characterization model based on the supplementary data andthe at least one of the set of microbiome composition features and theset of microbiome functional features, wherein the sleep-relatedcharacterization model is associated with the sleep-related condition;determining a sleep-related characterization for a user for thesleep-related condition based on the sleep-related characterizationmodel; and providing a therapy to the user for facilitating improvementof the sleep-related condition, based on the sleep-relatedcharacterization.
 2. The method of claim 1, wherein determining themicroorganism sequence dataset comprises: identifying a first primertype compatible with a first genetic target associated with thesleep-related condition; and generating the microorganism sequencedataset for the set of subjects based on the microorganism nucleic acidsand first primers corresponding to the first primer type.
 3. The methodof claim 2, wherein the samples correspond to a set of collection sitescomprising at least two of a gut site, a skin site, a nose site, a mouthsite, and a genitals site, and wherein determining the microorganismsequence dataset comprises: identifying the first primer type compatiblewith the first genetic target associated with the sleep-relatedcondition and a first collection site of the set of collection sites;identifying a second primer type compatible with a second genetic targetassociated with the sleep-related condition and a second collection siteof the set of collection sites; and generating the microorganismsequence dataset for the set of subjects based on the microorganismnucleic acids, the first primers corresponding to the first primer type,and second primers corresponding to the second primer type.
 4. Themethod of claim 3, wherein the first collection site comprises the gutsite, wherein determining the microorganism sequence dataset comprisesdetermining at least one of a metagenomic library and ametatranscriptomic library based on a subset of the microorganismnucleic acids and the first primers, and wherein determining the atleast one of the set of microbiome composition features and the set ofmicrobiome functional features comprises determining the at least one ofthe set of microbiome composition features and the set of microbiomefunctional features based on the at least one of the metagenomic libraryand the metatranscriptomic library.
 5. The method of claim 2, whereindetermining the microorganism sequence dataset comprises: fragmentingthe microorganism nucleic acids; and generating amplified microorganismnucleic acids through at least one of a singleplex amplification processand a multiplex amplification process for the fragmented microorganismnucleic acids, based on the first primers corresponding to the firstprimer type compatible with the first genetic target associated with thesleep-related condition; and determining, with a next-generationsequencing system, the microorganism sequence dataset based on theamplified microorganism nucleic acids.
 6. The method of claim 1, whereindetermining the at least one of the set of microbiome compositionfeatures and the set of microbiome functional features comprisesapplying a set of analytical techniques comprising at least one of aunivariate statistical test, a multivariate statistical test, adimensionality reduction technique, and an artificial intelligenceapproach, based on the microorganism sequence dataset, and wherein theat least one of the set of microbiome composition features and the setof microbiome functional features is configured to improve computingsystem-related functionality associated with the determining of thesleep-related characterization for the user.
 7. The method of claim 6,wherein determining the at least one of the set of microbiomecomposition features and the set of microbiome functional featurescomprises determining a set of cross-condition features associated withthe sleep-related condition and a second sleep-related condition, basedon the set of analytical techniques, wherein determining thesleep-related characterization comprises determining the sleep-relatedcharacterization for a user for the sleep-related condition and thesecond sleep-related condition based on the sleep-relatedcharacterization model, and wherein the set of cross-condition featuresis configured to improve the computing system-related functionalityassociated with the determining of the sleep-related characterizationfor the user for the sleep-related condition and the secondsleep-related condition.
 8. The method of claim 1, wherein thegenerating the sleep-related characterization model comprises generatingthe sleep-related characterization model based on the supplementary dataand the set of microbiome composition features, and wherein the set ofmicrobiome composition features comprises features associated at leastone of: Acetitomaculum (genus), Acidaminococcaceae (family),Acidaminococcus (genus), Acidaminococcus sp. D21 (species),Actinobacteria (class), Actinobacteria (phylum), Actinomyces (genus),Actinomyces sp. ICM47 (species), Actinomyces sp. ICM54 (species),Actinomyces sp. S9 PR-21 (species), Akkermansia muciniphila (species),Alcaligenaceae (family), Alistipes indistinctus (species), Alistipes sp.627 (species), Anaerococcus (genus), Anaerococcus hydrogenalis(species), Anaerococcus octavius (species), Anaerococcus sp. 8404299(species), Anaerococcus sp. 8405254 (species), Anaerococcus tetradius(species), Anaerofustis (genus), Anaerofustis stercorihominis (species),Anaeroplasma (genus), Anaerosporobacter (genus), Anaerostipes sp. 1y-2(species), Anaerostipes sp. 3_2_56FAA (species), Anaerotruncuscolihominis (species), Anaerotruncus sp. NML 070203 (species), Atopobium(genus), Atopobium vaginae (species), Bacteroides clarus (species),Bacteroides coprocola (species), Bacteroides nordii (species),Bacteroides plebeius (species), Bacteroides sp. 2_2_4 (species),Bacteroides sp. CB57 (species), Bacteroides sp. DJF_B097 (species),Bacteroides sp. EBA5-17 (species), Bacteroides sp. SLC1-38 (species),Bacteroides sp. XB12B (species), Bacteroides stercorirosoris (species),Bifidobacteriaceae (family), Bifidobacteriales (order), Bifidobacterium(genus), Bifidobacterium biavatii (species), Bifidobacterium bifidum(species), Bifidobacterium choerinum (species), Bifidobacterium longum(species), Bifidobacterium merycicum (species), Bifidobacterium sp.MSX5B (species), Bifidobacterium stercoris (species), Blautia glucerasea(species), Blautia hydrogenotrophica (species), Blautia sp. Ser8(species), Blautia sp. YHC-4 (species), Brevibacterium massiliense(species), Butyricicoccus (genus), Butyricicoccus pullicaecorum(species), Butyricimonas synergistica (species), Butyrivibrio (genus),Butyrivibrio crossotus (species), Campylobacter (genus), Campylobacterhominis (species), Campylobacter ureolyticus (species),Campylobacteraceae (family), Campylobacterales (order), CandidatusSoleaferrea (genus), Candidatus Stoquefichus (genus), Catabacterhongkongensis (species), Catenibacterium mitsuokai (species),Cellulosilyticum (genus), Collinsella aerofaciens (species), Collinsellaintestinalis (species), Coprobacillus (genus), Coprobacillus sp. D6(species), Coprobacter (genus), Coprobacter fastidiosus (species),Corynebacterium sp. (species), Corynebacterium ulcerans (species),Cyanobacteria (phylum), Dermabacter (genus), Dermabacter hominis(species), Dermabacteraceae (family), Desulfovibrio desulfuricans(species), Desulfovibrio piger (species), Desulfovibrio sp. (species),Dialister (genus), Dialister invisus (species), Dialisterpropionicifaciens (species), Dielma (genus), Dielma fastidiosa(species), Eggerthella (genus), Eggerthella sp. HGA1 (species),Eisenbergiella tayi (species), Enterobacter (genus), Enterobacter sp.BS2-1 (species), Enterococcus sp. C6I11 (species), Epsilonproteobacteria(class), Erysipelatoclostridium ramosum (species), Eubacteriaceae(family), Eubacterium (genus), Eubacterium callanderi (species),Eubacterium sp. SA11 (species), Facklamia sp. 1440-97 (species),Fibrobacter (genus), Flavobacterium (genus), Flavonifractor plautii(species), Fusobacteria (phylum), Fusobacteriaceae (family),Fusobacteriales (order), Fusobacteriia (class), Fusobacterium (genus),Fusobacterium equinum (species), Fusobacterium ulcerans (species),Gardnerella (genus), Gardnerella vaginalis (species), Gelria (genus),Gordonibacter (genus), Gordonibacter pamelaeae (species), Granulicatella(genus), Granulicatella adiacens (species), Haemophilus (genus),Haemophilus parainfluenzae (species), Herbaspirillum (genus),Herbaspirillum seropedicae (species), Holdemania (genus), Holdemaniafiliformis (species), Howardella (genus), Hydrogenoanaerobacterium(genus), Intestinibacter (genus), Klebsiella (genus), Kluyvera georgiana(species), Lachnospira (genus), Lactobacillus crispatus (species),Lactobacillus rhamnosus (species), Lactobacillus sp. 66c (species),Lactobacillus sp. Akhmr01 (species), Lactobacillus sp. BL302 (species),Lactobacillus sp. TAB-30 (species), Lactonifactor (genus), Lactonifactorlongoviformis (species), Leptotrichiaceae (family), Leuconostoc (genus),Leuconostocaceae (family), Megamonas (genus), Megamonas funiformis(species), Megasphaera (genus), Megasphaera genomosp. C1 (species),Megasphaera sp. S6-MB2 (species), Megasphaera sp. UPII 199-6 (species),Mobiluncus (genus), Mobiluncus mulieris (species), Moryella (genus),Negativicoccus (genus), Negativicoccus succinicivorans (species),Negativicutes (class), Oligella (genus), Oligella urethralis (species),Olsenella sp. 1183 (species), Oscillospiraceae (family), Pantoea(genus), Papillibacter (genus), Parabacteroides goldsteinii (species),Parabacteroides sp. 157 (species), Paraprevotella clara (species),Parvimonas micra (species), Pasteurellaceae (family), Pasteurellales(order), Peptoniphilus (genus), Peptoniphilus coxii (species),Peptoniphilus sp. 2002-2300004 (species), Peptoniphilus sp. 7-2(species), Peptoniphilus sp. gpac018A (species), Phascolarctobacterium(genus), Phascolarctobacterium succinatutens (species),Phyllobacteriaceae (family), Phyllobacterium (genus), Porphyromonasuenonis (species), Prevotella bivia (species), Prevotella disiens(species), Propionibacteriaceae (family), Propionibacterium (genus),Proteobacteria (phylum), Pseudobutyrivibrio (genus), Pseudoclavibactersp. Timone (species), Rhizobiales (order), Roseburia (genus),Ruminococcaceae (family), Sarcina ventriculi (species), Selenomonadalesorder Shuttleworthia (genus), Sphingomonadaceae (family),Sphingomonadales (order), Stenotrophomonas (genus), Stenotrophomonas sp.C-S-TSA3 (species), Streptococcus agalactiae (species), Streptococcusgordonii (species), Streptococcus pasteurianus (species), Streptococcusperoris (species), Streptococcus sp. BS35a (species), Streptococcus sp.oral taxon G59 (species), Sutterella (genus), Sutterella sp. YIT 12072(species), Sutterella stercoricanis (species), Sutterella wadsworthensis(species), Terrisporobacter glycolicus (species),Thermoanaerobacteraceae (family), Thermoanaerobacterales (order),Turicibacter (genus), Turicibacter sanguinis (species), Varibaculum(genus), Varibaculum cambriense (species), Veillonella sp. AS16(species), Veillonellaceae (family), Weissella hellenica (species),Xanthomonadaceae (family), Xanthomonadales (order), Alistipesmassiliensis (species), Butyricimonas virosa (species), Alistipesputredinis (species), Actinobacillus porcinus (species), Actinobacillus(genus), Butyricimonas (genus), Howardella ureilytica (species),Firmicutes (phylum), Clostridium (genus), Lentisphaeria (class),Anaeroplasmataceae (family), Pseudomonadaceae (family), Victivallaceae(family), Blautia (genus), Asteroleplasma (genus), Delftia (genus),Victivallis (genus), Peptostreptococcus (genus), Pseudomonas (genus),Alloprevotella (genus), Catenibacterium (genus), Anaeroplasmatales(order), Pseudomonadales (order), Lentisphaerae (phylum), Veillonellasp. CM60 (species), Porphyromonas sp. 2026 (species), Delftia sp.BN-SKY3 (species), Peptostreptococcus anaerobius (species), Citrobactersp. BW4 (species), Alistipes sp. RMA 9912 (species), Bacteroidesvulgatus (species), Lactobacillus sp. BL302 (species), Lactobacillus sp.TAB-26 (species), Bifidobacterium kashiwanohense (species), andButyricimonas sp. JCM 18677 (species).
 9. The method of claim 1, whereinthe therapy comprises a consumable comprising at least one of aprobiotic therapy and a prebiotic therapy, and wherein the at least oneof the probiotic therapy and the prebiotic therapy is associated with atleast one of Anaerococcus sp. 8405254, Bacteroides nordii, Bacteroidessp. SLC1-38, Bifidobacterium merycicum, Blautia glucerasea, Blautia sp.YHC-4, Butyrivibrio crossotus, Catabacter hongkongensis, Catenibacteriummitsuokai, Collinsella aerofaciens, Collinsella intestinalis,Desulfovibrio piger, Eubacterium sp. SA11, Fusobacterium ulcerans,Lactobacillus sp. TAB-30, Megamonas funiformis, Megasphaera sp. S6-MB2,Olsenella sp. 1183, Phascolarctobacterium succinatutens, Streptococcusgordonii, Sutterella sp. YIT 12072, Sutterella wadsworthensis,Veillonella sp. AS16, Fusobacterium equinum, Facklamia sp. 1440-97,Anaerostipes sp. 3_2_56FAA, Pseudoclavibacter sp. Timone, Parvimonasmicra, Lactobacillus sp. 66c, Bacteroides coprocola, Corynebacteriumulcerans, Anaerostipes sp. 1y-2, Sarcina ventriculi, Lactonifactorlongoviformis, Enterococcus sp. C6I11, Eubacterium callanderi, Dialisterinvisus, Blautia sp. Ser8, Bacteroides plebeius, Bacteroides sp. 2_2_4,Anaerotruncus colihominis, Varibaculum cambriense, Actinomyces sp. S9PR-21, Desulfovibrio sp., Prevotella disiens, Mobiluncus mulieris,Lactobacillus rhamnosus, Bifidobacterium sp. MSX5B, Acidaminococcus sp.D21, Bifidobacterium bifidum, Bacteroides sp. EBA5-17, Anaerococcushydrogenalis, Alistipes sp. 627, Negativicoccus succinicivorans,Anaerococcus sp. 8404299, Butyricimonas synergistica, Actinomyces sp.ICM54, Turicibacter sanguinis, Blautia hydrogenotrophica,Parabacteroides goldsteinii, Bifidobacterium biavatii,Erysipelatoclostridium ramosum, Anaerofustis stercorihominis,Gardnerella vaginalis, Gordonibacter pamelaeae, Campylobacter hominis,Lactobacillus sp. BL302, Megasphaera sp. UPII 199-6, Peptoniphilus sp.gpac018A, Bifidobacterium stercoris, Butyricicoccus pullicaecorum,Megasphaera sp. S6-MB2, Corynebacterium sp., Dialisterpropionicifaciens, Anaerococcus tetradius, Eggerthella sp. HGA1,Peptoniphilus sp. 7-2, Terrisporobacter glycolicus, Peptoniphilus sp.2002-2300004, Bacteroides sp. CB57, Streptococcus pasteurianus,Megasphaera genomosp. C1, Holdemania filiformis, Coprobacillus sp. D6,Dielma fastidiosa, Sutterella stercoricanis, Brevibacterium massiliense,Bacteroides stercorirosoris, Lactobacillus sp. Akhmr01, Actinomyces sp.ICM47, Lactobacillus crispatus, Prevotella bivia, Enterobacter sp.BS2-1, Streptococcus sp. BS35a, Anaerotruncus sp. NML 070203,Haemophilus parainfluenzae, Peptoniphilus coxii, Granulicatellaadiacens, Campylobacter ureolyticus, Bifidobacterium longum, Bacteroidesclarus, Bacteroides sp. XB12B, Streptococcus agalactiae, Kluyverageorgiana, Flavonifractor plautii, Paraprevotella clara,Stenotrophomonas sp. C-S-TSA3, Bacteroides sp. DJF_B097, Herbaspirillumseropedicae, Streptococcus sp. oral taxon G59, Eisenbergiella tayi,Coprobacter fastidiosus, Oligella urethralis, Akkermansia muciniphila,Desulfovibrio desulfuricans, Streptococcus peroris, Anaerococcusoctavius, Atopobium vaginae, Parabacteroides sp. 157, Bifidobacteriumchoerinum, Porphyromonas uenonis, Dermabacter hominis, Alistipesindistinctus, Weissella hellenica, Alistipes massiliensis, Butyricimonasvirosa, Alistipes putredinis, Actinobacillus porcinus, Howardellaureilytica, Veillonella sp. CM60, Porphyromonas sp. 2026, Delftia sp.BN-SKY3, Peptostreptococcus anaerobius, Citrobacter sp. BW4, Alistipessp. RMA 9912, Bacteroides vulgatus, Lactobacillus sp. TAB-26,Bifidobacterium sp., Bifidobacterium kashiwanohense, and Butyricimonassp. JCM
 18677. 10. The method of claim 1, wherein the supplementary datacomprises at least one of survey-derived data, user data, site-specificdata, and device data, wherein the method further comprises determininga set of supplementary features based on the at least one of thesurvey-derived data, the user data, the site-specific data, and thedevice data, and wherein generating the sleep-related characterizationmodel comprises generating the sleep-related characterization modelbased on the set of supplementary features and the at least one of theset of microbiome composition features and the set of microbiomefunctional features.
 11. The method of claim 1, further comprisingdetermining a set of user microbiome features for the user based on auser sample from the user, wherein the set of user microbiome featuresis associated with the at least one of the set of microbiome compositionfeatures and the set of microbiome functional features, wherein thesleep-related characterization model comprises a therapy model, whereindetermining the sleep-related characterization comprises determining thetherapy for the user for the sleep-related condition based on thetherapy model and the set of user microbiome features, and whereinproviding the therapy comprises providing a recommendation for thetherapy to the user at a computing device associated with the user. 12.A method for characterizing a first sleep-related condition associatedwith microorganisms, the method comprising: collecting a sample from auser, wherein the sample comprises microorganism nucleic acidsassociated with the first sleep-related condition; determining amicroorganism dataset associated with the user based on themicroorganism nucleic acids of the sample; determining user microbiomefeatures comprising at least one of user microbiome composition featuresand user microbiome functional features, based on the microorganismdataset, wherein the user microbiome features are associated with thefirst sleep-related condition; determining a sleep-relatedcharacterization for the user for the first sleep-related conditionbased on the user microbiome features; and providing a therapy for theuser for facilitating improvement of the first sleep-related condition,based on the sleep-related characterization.
 13. The method of claim 12,further comprising collecting first sleep-tracking data comprising atleast one of first survey-derived data and first device data, whereinthe first sleep-tracking data is associated with sleep quality of theuser, wherein determining the sleep-related characterization comprisesdetermining the sleep-related characterization for the user based on theuser microbiome features and the first sleep-tracking data, and whereinthe method further comprises, after providing the therapy: collecting apost-therapy sample from the user; collecting second sleep-tracking datacomprising at least one of second survey-derived data and second devicedata, wherein the second sleep-tracking data is associated with thesleep quality of the user; and determining a post-therapy sleep-relatedcharacterization for the user for the first sleep-related conditionbased on the second sleep-tracking data and post-therapy microbiomefeatures associated with the post-therapy sample.
 14. The method ofclaim 13, further comprising facilitating therapeutic intervention inrelation to an updated therapy for the user for improving the firstsleep-related condition, based on the post-therapy sleep-relatedcharacterization, and wherein the updated therapy comprises at least oneof a consumable, a device-related therapy, a surgical operation, apsychological-associated therapy, a behavior modification therapy, andan environmental factor modification therapy.
 15. The method of claim14, wherein determining the post-therapy sleep-related characterizationcomprises determining a comparison between microbiome characteristics ofthe user and reference microbiome characteristics corresponding to auser subgroup sharing at least one of a behavior and an environmentalfactor associated with the first sleep-related condition, based on thepost-therapy microbiome features, and wherein facilitating therapeuticintervention in relation to the updated therapy comprises presenting thecomparison to the user for facilitating at least one of the behaviormodification therapy and the environmental factor modification therapy.16. The method of claim 12, wherein determining user microbiome featurescomprises determining the user microbiome composition featurescomprising a first set of composition features associated with at leastone of: Acetitomaculum (genus), Acidaminococcaceae (family),Acidaminococcus (genus), Acidaminococcus sp. D21 (species),Actinobacteria (class), Actinobacteria (phylum), Actinomyces (genus),Actinomyces sp. ICM47 (species), Actinomyces sp. ICM54 (species),Actinomyces sp. S9 PR-21 (species), Akkermansia muciniphila (species),Alcaligenaceae (family), Alistipes indistinctus (species), Alistipes sp.627 (species), Anaerococcus (genus), Anaerococcus hydrogenalis(species), Anaerococcus octavius (species), Anaerococcus sp. 8404299(species), Anaerococcus sp. 8405254 (species), Anaerococcus tetradius(species), Anaerofustis (genus), Anaerofustis stercorihominis (species),Anaeroplasma (genus), Anaerosporobacter (genus), Anaerostipes sp. 1y-2(species), Anaerostipes sp. 3_2_56FAA (species), Anaerotruncuscolihominis (species), Anaerotruncus sp. NML 070203 (species), Atopobium(genus), Atopobium vaginae (species), Bacteroides clarus (species),Bacteroides coprocola (species), Bacteroides nordii (species),Bacteroides plebeius (species), Bacteroides sp. 2_2_4 (species),Bacteroides sp. CB57 (species), Bacteroides sp. DJF_B097 (species),Bacteroides sp. EBA5-17 (species), Bacteroides sp. SLC1-38 (species),Bacteroides sp. XB12B (species), Bacteroides stercorirosoris (species),Bifidobacteriaceae (family), Bifidobacteriales (order), Bifidobacterium(genus), Bifidobacterium biavatii (species), Bifidobacterium bifidum(species), Bifidobacterium choerinum (species), Bifidobacterium longum(species), Bifidobacterium merycicum (species), Bifidobacterium sp.MSX5B (species), Bifidobacterium stercoris (species), Blautia glucerasea(species), Blautia hydrogenotrophica (species), Blautia sp. Ser8(species), Blautia sp. YHC-4 (species), Brevibacterium massiliense(species), Butyricicoccus (genus), Butyricicoccus pullicaecorum(species), Butyricimonas synergistica (species), Butyrivibrio (genus),Butyrivibrio crossotus (species), Campylobacter (genus), Campylobacterhominis (species), Campylobacter ureolyticus (species),Campylobacteraceae (family), Campylobacterales (order), CandidatusSoleaferrea (genus), Candidatus Stoquefichus (genus), Catabacterhongkongensis (species), Catenibacterium mitsuokai (species),Cellulosilyticum (genus), Collinsella aerofaciens (species), Collinsellaintestinalis (species), Coprobacillus (genus), Coprobacillus sp. D6(species), Coprobacter (genus), Coprobacter fastidiosus (species),Corynebacterium sp. (species), Corynebacterium ulcerans (species),Cyanobacteria (phylum), Dermabacter (genus), Dermabacter hominis(species), Dermabacteraceae (family), Desulfovibrio desulfuricans(species), Desulfovibrio piger (species), Desulfovibrio sp. (species),Dialister (genus), Dialister invisus (species), Dialisterpropionicifaciens (species), Dielma (genus), Dielma fastidiosa(species), Eggerthella (genus), Eggerthella sp. HGA1 (species),Eisenbergiella tayi (species), Enterobacter (genus), Enterobacter sp.BS2-1 (species), Enterococcus sp. C6I11 (species), Epsilonproteobacteria(class), Erysipelatoclostridium ramosum (species), Eubacteriaceae(family), Eubacterium (genus), Eubacterium callanderi (species),Eubacterium sp. SA11 (species), Facklamia sp. 1440-97 (species),Fibrobacter (genus), Flavobacterium (genus), Flavonifractor plautii(species), Fusobacteria (phylum), Fusobacteriaceae (family),Fusobacteriales (order), Fusobacteriia (class), Fusobacterium (genus),Fusobacterium equinum (species), Fusobacterium ulcerans (species),Gardnerella (genus), Gardnerella vaginalis (species), Gelria (genus),Gordonibacter (genus), Gordonibacter pamelaeae (species), Granulicatella(genus), Granulicatella adiacens (species), Haemophilus (genus),Haemophilus parainfluenzae (species), Herbaspirillum (genus),Herbaspirillum seropedicae (species), Holdemania (genus), Holdemaniafiliformis (species), Howardella (genus), Hydrogenoanaerobacterium(genus), Intestinibacter (genus), Klebsiella (genus), Kluyvera georgiana(species), Lachnospira (genus), Lactobacillus crispatus (species),Lactobacillus rhamnosus (species), Lactobacillus sp. 66c (species),Lactobacillus sp. Akhmr01 (species), Lactobacillus sp. BL302 (species),Lactobacillus sp. TAB-30 (species), Lactonifactor (genus), Lactonifactorlongoviformis (species), Leptotrichiaceae (family), Leuconostoc (genus),Leuconostocaceae (family), Megamonas (genus), Megamonas funiformis(species), Megasphaera (genus), Megasphaera genomosp. C1 (species),Megasphaera sp. S6-MB2 (species), Megasphaera sp. UPII 199-6 (species),Mobiluncus (genus), Mobiluncus mulieris (species), Moryella (genus),Negativicoccus (genus), Negativicoccus succinicivorans (species),Negativicutes (class), Oligella (genus), Oligella urethralis (species),Olsenella sp. 1183 (species), Oscillospiraceae (family), Pantoea(genus), Papillibacter (genus), Parabacteroides goldsteinii (species),Parabacteroides sp. 157 (species), Paraprevotella clara (species),Parvimonas micra (species), Pasteurellaceae (family), Pasteurellales(order), Peptoniphilus (genus), Peptoniphilus coxii (species),Peptoniphilus sp. 2002-2300004 (species), Peptoniphilus sp. 7-2(species), Peptoniphilus sp. gpac018A (species), Phascolarctobacterium(genus), Phascolarctobacterium succinatutens (species),Phyllobacteriaceae (family), Phyllobacterium (genus), Porphyromonasuenonis (species), Prevotella bivia (species), Prevotella disiens(species), Propionibacteriaceae (family), Propionibacterium (genus),Proteobacteria (phylum), Pseudobutyrivibrio (genus), Pseudoclavibactersp. Timone (species), Rhizobiales (order), Roseburia (genus),Ruminococcaceae (family), Sarcina ventriculi (species), Selenomonadalesorder Shuttleworthia (genus), Sphingomonadaceae (family),Sphingomonadales (order), Stenotrophomonas (genus), Stenotrophomonas sp.C-S-TSA3 (species), Streptococcus agalactiae (species), Streptococcusgordonii (species), Streptococcus pasteurianus (species), Streptococcusperoris (species), Streptococcus sp. BS35a (species), Streptococcus sp.oral taxon G59 (species), Sutterella (genus), Sutterella sp. YIT 12072(species), Sutterella stercoricanis (species), Sutterella wadsworthensis(species), Terrisporobacter glycolicus (species),Thermoanaerobacteraceae (family), Thermoanaerobacterales (order),Turicibacter (genus), Turicibacter sanguinis (species), Varibaculum(genus), Varibaculum cambriense (species), Veillonella sp. AS16(species), Veillonellaceae (family), Weissella hellenica (species),Xanthomonadaceae (family), and Xanthomonadales (order).
 17. The methodof claim 16, wherein determining the user microbiome features comprisesdetermining the user microbiome composition features comprising a secondset of composition features associated with at least one of: Alistipesmassiliensis (species), Butyricimonas virosa (species), Alistipesputredinis (species), Actinobacillus porcinus (species), Actinobacillus(genus), Butyricimonas (genus), Howardella ureilytica (species),Firmicutes (phylum), Clostridium (genus), Lentisphaeria (class),Anaeroplasmataceae (family), Pseudomonadaceae (family), Victivallaceae(family), Blautia (genus), Asteroleplasma (genus), Delftia (genus),Victivallis (genus), Peptostreptococcus (genus), Pseudomonas (genus),Alloprevotella (genus), Catenibacterium (genus), Anaeroplasmatales(order), Pseudomonadales (order), Lentisphaerae (phylum), Veillonellasp. CM60 (species), Porphyromonas sp. 2026 (species), Delftia sp.BN-SKY3 (species), Peptostreptococcus anaerobius (species), Citrobactersp. BW4 (species), Alistipes sp. RMA 9912 (species), Bacteroidesvulgatus (species), Lactobacillus sp. BL302 (species), Lactobacillus sp.TAB-26 (species), Bifidobacterium kashiwanohense (species),Butyricimonas sp. JCM 18677 (species).
 18. The method of claim 17,wherein determining the sleep-related characterization comprisesdetermining the sleep-related characterization for the user for thefirst sleep-related condition and a second sleep-related condition basedon the first set of composition features, a first sleep-relatedcharacterization model, the second set of composition features, and asecond sleep-related characterization model, wherein the firstsleep-related characterization model is associated with the firstsleep-related condition, and wherein the second sleep-relatedcharacterization model is associated with the second sleep-relatedcondition.
 19. The method of claim 18, wherein determining the usermicrobiome features comprises: determining first user microbiomefunctional features associated with first functions from at least one ofCluster of Orthologous Groups (COG) database and Kyoto Encyclopedia ofGenes and Genomes (KEGG) database, wherein the first user microbiomefunctional features are associated with the first sleep-relatedcondition; and determining second user microbiome functional featuresassociated with second functions from at least one of the COG databaseand the KEGG database, wherein the second user microbiome functionalfeatures are associated with the second sleep-related condition, whereindetermining the sleep-related characterization comprises determining thesleep-related characterization for the user for the first sleep-relatedcondition and the second sleep-related condition based on the first setof composition features, the first user microbiome functional features,the first sleep-related characterization model, the second set ofcomposition features, the second user microbiome functional features,and the second sleep-related characterization model.
 20. The method ofclaim 12, wherein determining the user microbiome features comprisesapplying a set of analytical techniques to determine at least one ofpresence of at least one of a microbiome composition diversity featureand a microbiome functional diversity feature, absence of the at leastone of the microbiome composition diversity feature and the microbiomefunctional diversity feature, a relative abundance feature describingrelative abundance of different taxonomic groups associated with thefirst sleep-related condition, a ratio feature describing a ratiobetween at least two microbiome features associated with the differenttaxonomic groups, an interaction feature describing an interactionbetween the different taxonomic groups, and a phylogenetic distancefeature describing phylogenetic distance between the different taxonomicgroups, based on the microorganism dataset, and wherein the set ofanalytical techniques comprises at least one of a univariate statisticaltest, a multivariate statistical test, a dimensionality reductiontechnique, and an artificial intelligence approach.
 21. The method ofclaim 12, wherein the first sleep-related condition comprises a badsleep quality condition, wherein determining user microbiome featurescomprises determining the user microbiome composition featurescomprising a set of composition features associated with a genital siteand with at least one of: Abiotrophia defectiva, Achromobacterxylosoxidans, Acidaminococcus intestini, Acidaminococcus sp. D21,Acinetobacter sp. C-S-NA3, Acinetobacter sp. RBE2CD-114, Acinetobactersp. RE 51, Actinobaculum massiliense, Actinomyces europaeus, Actinomyceshongkongensis, Actinomyces neuii, Actinomyces odontolyticus, Actinomycesradingae, Actinomyces sp. 2002-2301122, Actinomyces sp. ICM54,Actinomyces sp. ICM58, Actinomyces sp. S4-C9, Actinomyces sp. S9 PR-21,Actinomyces turicensis, Actinotignum schaalii, Actinotignum urinale,Adlercreutzia equolifaciens, Aerococcus christensenii, Aerococcusurinae, Akkermansia muciniphila, Alistipes finegoldii, Alistipesputredinis, Alistipes shahii, Alistipes sp. EBA6-25cl2, Alistipes sp.HGB5, Alistipes sp. NML05A004, Alistipes sp. RMA 9912, Alloscardoviaomnicolens, Anaerobacillus alkalidiazotrophicus, Anaerococcushydrogenalis, Anaerococcus lactolyticus, Anaerococcus murdochii,Anaerococcus octavius, Anaerococcus prevotii, Anaerococcus provencensis,Anaerococcus sp. 8404299, Anaerococcus sp. PH9, Anaerococcus sp. S887-3, Anaerococcus sp. S9 PR-16, Anaerococcus sp. S9 PR-5, Anaerococcustetradius, Anaerococcus vaginalis, Anaeroglobus geminatus, Anaerostipeshadrus, Anaerostipes sp. 3_2_56FAA, Anoxybacillus sp. HT14,Aquabacterium sp. Aqua2, Arcanobacterium haemolyticum, Asaccharosporairregularis, Atopobium deltae, Atopobium minutum, Atopobium sp. MVA9,Atopobium sp. S3MV24, Atopobium sp. S3MV26, Atopobium sp. S3PFAA1-4,Atopobium sp. S4-5, Atopobium sp. S4-A11a, Bacillus pseudofirmus,Bacillus sp. CZb, Bacillus sp. T41, Bacteroides acidifaciens,Bacteroides clarus, Bacteroides coprocola, Bacteroides dorei,Bacteroides eggerthii, Bacteroides finegoldii, Bacteroides fragilis,Bacteroides intestinalis, Bacteroides massiliensis, Bacteroidesplebeius, Bacteroides salyersiae, Bacteroides sp. AR20, Bacteroides sp.AR29, Bacteroides sp. EBA5-17, Bacteroides sp. SLC1-38, Bacteroides sp.XB12B, Bacteroides sp. XB44A, Bacteroides stercorirosoris, Bacteroidesstercoris, Bacteroides thetaiotaomicron, Bacteroides uniformis,Bacteroides vulgatus, Barnesiella intestinihominis, Bergeyella sp. AF14,Bifidobacterium bifidum, Bifidobacterium breve, Bifidobacterium dentium,Bifidobacterium kashiwanohense, Bifidobacterium sp. 120, Bifidobacteriumsp. MSX5B, Blautia faecis, Blautia sp. Ser8, Bosea sp. BIWAKO-01, Boseasp. R-46060, Brachybacterium sp. NIO-27, Bradyrhizobium sp. 68A4SAPT,Bradyrhizobium sp. CCBAU 53380, Brevibacterium massiliense,Brevibacterium paucivorans, Brevibacterium ravenspurgense, Brevundimonassp. V3M6, Bulleidia extructa, Campylobacter concisus, Campylobactergracilis, Campylobacter hominis, Campylobacter rectus, Campylobacter sp.10_1_50, Campylobacter sp. FOBRC15, Campylobacter ureolyticus,Chryseobacterium sp. MH28, Citrobacter sp. BW4, Cloacibacillusevryensis, Cloacibacterium normanense, Collinsella aerofaciens,Coprobacter fastidiosus, Corynebacterium argentoratense, Corynebacteriumcanis, Corynebacterium diphtheriae, Corynebacterium epidermidicanis,Corynebacterium frankenforstense, Corynebacterium freiburgense,Corynebacterium glucuronolyticum, Corynebacterium mastitidis,Corynebacterium sp., Corynebacterium sp. 2300500, Corynebacterium sp.713182/2012, Corynebacterium sp. NML 97-0186, Corynebacterium sp.NML96-0085, Corynebacterium sp. jw37, Corynebacterium spheniscorum,Corynebacterium ulcerans, Cronobacter sakazakii, Curvibacter gracilis,Cutibacterium acnes, Cutibacterium avidum, Delftia lacustris, Delftiasp. BN-SKY3, Dermabacter hominis, Dialister micraerophilus, Dialisterpropionicifaciens, Dialister sp. E2_20, Dialister sp. S4-23, Dialistersp. S7MSR5, Dialister succinatiphilus, Dorea longicatena, Eggerthellasp. HGA1, Eggerthia catenaformis, Enterococcus faecalis, Enterococcussp. C6I11, Enterococcus sp. SI-4, Facklamia languida, Facklamia sp.1440-97, Facklamia sp. 164-92, Faecalibacterium prausnitzii,Faecalibacterium sp. canine oral taxon 147, Fastidiosipila sanguinis,Finegoldia sp. S3MVA9, Finegoldia sp. S5-A7, Finegoldia sp. S8 F7,Finegoldia sp. S9 AA1-5, Flavonifractor plautii, Fusobacteriumnucleatum, Fusobacterium periodonticum, Fusobacterium sp. ACB2,Fusobacterium sp. AS2, Fusobacterium sp. CM21, Gardnerella sp. S3PF20,Gardnerella vaginalis, Gemella asaccharolytica, Gemella morbillorum,Gemella sp. 933-88, Globicatella sanguinis, Globicatella sulfidifaciens,Granulicatella adiacens, Granulicatella elegans, Haemophilus influenzae,Haemophilus parainfluenzae, Halomonas pacifica, Helcococcus seattlensis,Helcococcus sueciensis, Herbaspirillum huttiense, Herbaspirillumseropedicae, Intestinimonas butyriciproducens, Jonquetella anthropi,Jonquetella sp. BV3C4, Kluyvera georgiana, Kocuria rhizophila,Lachnospira pectinoschiza, Lactobacillus acidophilus, Lactobacilluscoleohominis, Lactobacillus crispatus, Lactobacillus fermentum,Lactobacillus fornicalis, Lactobacillus gasseri, Lactobacillus iners,Lactobacillus jensenii, Lactobacillus johnsonii, Lactobacillusplantarum, Lactobacillus reuteri, Lactobacillus rhamnosus, Lactobacillussp. 7_1_47FAA, Lactobacillus sp. Akhmr01, Lactobacillus sp. BL302,Lactobacillus sp. C30An8, Lactobacillus sp. CR-609S, Lactobacillus sp.MYMRS/TEN2, Lactobacillus sp. TAB-22, Lactobacillus taiwanensis,Lactobacillus vaginalis, Lactococcus lactis, Lysinibacillus sphaericus,Megamonas funiformis, Megasphaera massiliensis, Megasphaeramicronuciformis, Megasphaera sp. BV3C16-1, Megasphaera sp. UPII 135-E,Megasphaera sp. UPII 199-6, Mesorhizobium sp. mat916, Methanobrevibactersmithii, Methylobacterium sp. CBMB45, Methylobacterium sp. RK-2008-1,Microbacterium yannicii, Micrococcus luteus, Mobiluncus curtisii,Mobiluncus mulieris, Moraxella sp. 26, Moryella indoligenes,Murdochiella asaccharolytica, Mycobacterium sp. T126, Mycoplasmahominis, Negativicoccus sp. S5-A15, Negativicoccus succinicivorans,Neisseria elongata, Novosphingobium sediminicola, Ochrobactrum sp.SCTS14, Odoribacter splanchnicus, Oligella urethralis, Olsenella sp. S9HS-6, Pantoea vagans, Parabacteroides distasonis, Parabacteroidesgoldsteinii, Parabacteroides merdae, Paraprevotella clara, Peptococcusniger, Peptococcus sp. S9 B-15, Peptococcus sp. S9 Pr-12, Peptoniphiluscoxii, Peptoniphilus duerdenii, Peptoniphilus koenoeneniae,Peptoniphilus lacrimalis, Peptoniphilus sp. 1-14, Peptoniphilus sp.2002-2300004, Peptoniphilus sp. 2002-38328, Peptoniphilus sp. 7-2,Peptoniphilus sp. BV3AC2, Peptoniphilus sp. DNF00840, Peptoniphilus sp.JCM 8143, Peptoniphilus sp. S4-13, Peptoniphilus sp. S4-A10,Peptoniphilus sp. S9 PR-13, Peptoniphilus sp. gpac018A, Peptoniphilussp. gpac018B, Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon375, Peptostreptococcus anaerobius, Porphyromonas asaccharolytica,Porphyromonas bennonis, Porphyromonas somerae, Porphyromonas sp. 2024b,Porphyromonas sp. 2026, Porphyromonas sp. S8 86-12, Porphyromonasuenonis, Prevotella amnii, Prevotella bivia, Prevotella buccalis,Prevotella disiens, Prevotella sp. BV3C7, Prevotella sp. S4-10,Prevotella timonensis, Propionibacterium sp. KPL2005, Propionibacteriumsp. MSP09A, Propionibacterium sp. V07/12348, Propionimicrobiumlymphophilum, Proteus mirabilis, Pseudoclavibacter sp. Timone,Pseudoglutamicibacter albus, Pseudoglutamicibacter cumminsii,Pseudomonas brenneri, Pseudomonas sp. GmFRB023, Ralstonia pickettii,Ralstonia sp. A52, Rhizobium etli, Rhizobium sp. sc-w, Rhodococcuserythropolis, Rhodopseudomonas boonkerdii, Roseburia faecis, Roseburiahominis, Roseburia intestinalis, Roseburia sp. 11SE39, Rothiamucilaginosa, Serratia nematodiphila, Slackia exigua, Slackia sp. S8 F4,Sneathia sanguinegens, Solobacterium moorei, Solobacterium sp. S4-A19,Sphingobium sp. LC341, Sphingomonas sp. 24T, Sphingomonas sp. 540,Staphylococcus aureus, Staphylococcus epidermidis, Staphylococcussimulans, Staphylococcus sp. 334802, Staphylococcus sp. C9I2,Staphylococcus sp. WB18-16, Stenotrophomonas sp. C-S-TSA3,Stenotrophomonas sp. KITS-1, Stomatobaculum longum, Streptococcusagalactiae, Streptococcus anginosus, Streptococcus dysgalactiae,Streptococcus gordonii, Streptococcus parasanguinis, Streptococcuspasteurianus, Streptococcus sp. 11aTha1, Streptococcus sp.2011_Oral_MS_A3, Streptococcus sp. GMD6S, Streptococcus sp. XQ-1,Subdoligranulum variabile, Sutterella stercoricanis, Sutterellawadsworthensis, Tessaracoccus sp. SL014B-79A, Trueperella bernardiae,Ureaplasma urealyticum, Varibaculum cambriense, Varibaculum sp. CCUG45114, Varibaculum sp. CCUG 61255, Veillonella atypica, Veillonellamontpellierensis, Veillonella parvula, Veillonella ratti, Veillonellarogosae, Veillonella seminalis, Veillonella sp. 2011_Oral_VSA_D3,Veillonella sp. AS16, Veillonella sp. CM60, Veillonella sp. MSA12,Veillonella sp. oral taxon 780, Weeksella virosa, Abiotrophia,Achromobacter, Acidaminococcus, Acinetobacter, Actinobaculum,Actinotignum, Adlercreutzia, Aerococcus, Akkermansia, Alistipes,Alloprevotella, Alloscardovia, Anaerobacillus, Anaerococcus,Anaeroglobus, Anaerosporobacter, Anaerotruncus, Aquabacterium,Arcanobacterium, Arthrobacter, Asaccharospora, Atopobium, Bacillus,Bacteroides, Barnesiella, Bergeyella, Bifidobacterium, Blautia, Bosea,Brachybacterium, Brevibacterium, Brevundimonas, Bulleidia,Butyricimonas, Campylobacter, Catenibacterium, Chryseobacterium,Citrobacter, Cloacibacillus, Cloacibacterium, Clostridium, Collinsella,Coprobacter, Corynebacterium, Cronobacter, Curvibacter, Cutibacterium,Deinococcus, Delftia, Dermabacter, Dialister, Eggerthia, Enterobacter,Enterococcus, Enterorhabdus, Erysipelatoclostridium, Facklamia,Faecalibacterium, Fastidiosipila, Flavobacterium, Flavonifractor,Fusobacterium, Gardnerella, Gemella, Globicatella, Granulicatella,Halomonas, Helcococcus, Herbaspirillum, Howardella, Intestinibacter,Intestinimonas, Johnsonella, Jonquetella, Kluyvera, Lachnoanaerobaculum,Lachnospira, Lactobacillus, Leptotrichia, Lysinibacillus,Marvinbryantia, Megamonas, Megasphaera, Meiothermus, Mesorhizobium,Methanobrevibacter, Methylobacterium, Microbacterium, Micrococcus,Mobiluncus, Mogibacterium, Moraxella, Moryella, Murdochiella,Mycobacterium, Mycoplasma, Negativicoccus, Neisseria, Novosphingobium,Ochrobactrum, Odoribacter, Oligella, Olsenella, Oribacterium,Oscillibacter, Oscillospira, Pantoea, Parabacteroides, Paraprevotella,Parasutterella, Parvibacter, Parvimonas, Pelomonas, Peptoclostridium,Peptococcus, Peptoniphilus, Peptostreptococcus, Phyllobacterium,Porphyromonas, Prevotella, Propionibacterium, Propionimicrobium,Proteus, Pseudobutyrivibrio, Pseudoclavibacter, Pseudomonas,Pyramidobacter, Rhizobium, Rhodococcus, Rhodopseudomonas, Romboutsia,Roseburia, Rothia, Sarcina, Senegalimassilia, Serratia, Shuttleworthia,Slackia, Sneathia, Solobacterium, Sphingobium, Sphingomonas,Staphylococcus, Stomatobaculum, Streptococcus, Sutterella,Terrisporobacter, Tessaracoccus, Thalassospira, Trueperella, Ureaplasma,Varibaculum, Veillonella, Weeksella.
 22. The method of claim 12, whereinthe first sleep-related condition comprises a bad sleep qualitycondition, wherein determining user microbiome features comprisesdetermining the user microbiome composition features comprising a set ofcomposition features associated with a gut site and with at least oneof: Abiotrophia defectiva, Achromobacter xylosoxidans, Acidaminococcusfermentans, Acidaminococcus sp. BV3L6, Acidaminococcus sp. D21,Actinobaculum massiliense, Actinomyces dentalis, Actinomycesgraevenitzii, Actinomyces odontolyticus, Actinomyces radingae,Actinomyces sp. 2002-2301122, Actinomyces sp. ICM47, Actinomyces sp.ICM54, Actinomyces sp. ICM58, Actinomyces sp. S4-C9, Actinomyces sp.S6-Spd3, Actinomyces sp. S9 PR-21, Actinomyces sp. oral taxon 175,Actinomyces sp. ph3, Actinomyces turicensis, Actinomyces viscosus,Actinotignum schaalii, Adlercreutzia equolifaciens, Aerococcuschristensenii, Aerococcus sp. B43(2010), Aerococcus urinae, Aeromonassalmonicida, Aeromonas sp. B11, Aerosphaera taetra, Aggregatibacteraphrophilus, Aggregatibacter segnis, Akkermansia muciniphila, Alistipesindistinctus, Alistipes inops, Alistipes massiliensis, Alistipesonderdonkii, Alistipes putredinis, Alistipes shahii, Alistipes sp.EBA6-25cl2, Alistipes sp. HGB5, Alistipes sp. NML05A004, Alistipes sp.RMA 9912, Allobaculum stercoricanis, Alloprevotella tannerae,Alloscardovia omnicolens, Anaerobacillus alkalidiazotrophicus,Anaerococcus hydrogenalis, Anaerococcus lactolyticus, Anaerococcusprevotii, Anaerococcus provencensis, Anaerococcus sp. 8404299,Anaerococcus sp. 8405254, Anaerococcus sp. 9401487, Anaerococcus sp.PH9, Anaerococcus sp. S8 87-3, Anaerococcus sp. S8 F2, Anaerococcus sp.S9 PR-16, Anaerococcus sp. S9 PR-5, Anaerococcus sp. gpac137,Anaerococcus tetradius, Anaerofustis stercorihominis, Anaeroglobusgeminatus, Anaeroglobus sp. S4-A15, Anaerosinus glycerini,Anaerosporobacter mobilis, Anaerostipes butyraticus, Anaerostipescaccae, Anaerostipes hadrus, Anaerostipes rhamnosivorans, Anaerostipessp. 3_2_56FAA, Anaerostipes sp. 5_1_63FAA, Anaerostipes sp. 992a,Anaerostipes sp. AIP 183.04, Anaerotruncus colihominis, Anaerotruncussp. NML 070203, Anaerovibrio sp. 656, Anaerovibrio sp. 765,Arcanobacterium haemolyticum, Arthrobacter sp., Asaccharosporairregularis, Atopobium deltae, Atopobium minutum, Atopobium rimae,Atopobium sp. DMCT15023, Atopobium sp. F0209, Atopobium sp. MVA9,Atopobium sp. S3MV24, Atopobium sp. S3MV26, Atopobium vaginae, Bacilluscereus, Bacillus sp. HC15, Bacillus sp. N-16, Bacillus sp. PrMC7,Bacillus subtilis, Bacteroides acidifaciens, Bacteroides barnesiae,Bacteroides caccae, Bacteroides caecigallinarum, Bacteroideschinchillae, Bacteroides clarus, Bacteroides coprocola, Bacteroideseggerthii, Bacteroides faecis, Bacteroides finegoldii, Bacteroidesfluxus, Bacteroides fragilis, Bacteroides massiliensis, Bacteroidesnordii, Bacteroides oleiciplenus, Bacteroides ovatus, Bacteroidesplebeius, Bacteroides rodentium, Bacteroides salanitronis, Bacteroidessalyersiae, Bacteroides sartorii, Bacteroides sp., Bacteroides sp.14(A), Bacteroides sp. 2011_Ileo_VSA_D7, Bacteroides sp. 2_2_4,Bacteroides sp. 35AE37, Bacteroides sp. 3_1_23, Bacteroides sp. 4072,Bacteroides sp. AR20, Bacteroides sp. AR29, Bacteroides sp. C13EG172,Bacteroides sp. CB57, Bacteroides sp. D-2, Bacteroides sp. D20,Bacteroides sp. D22, Bacteroides sp. DJF_B097, Bacteroides sp. EBA5-17,Bacteroides sp. HPS0048, Bacteroides sp. J1511, Bacteroides sp. S-17,Bacteroides sp. SLC1-38, Bacteroides sp. Smarlab 3301643, Bacteroidessp. TP-5, Bacteroides sp. WH302, Bacteroides sp. XB12B, Bacteroides sp.XB44A, Bacteroides sp. dnLKV9, Bacteroides stercorirosoris, Bacteroidesstercoris, Bacteroides thetaiotaomicron, Bacteroides uniformis,Bacteroides vulgatus, Barnesiella intestinihominis, Barnesiellaviscericola, Bifidobacterium adolescentis, Bifidobacterium animalis,Bifidobacterium biavatii, Bifidobacterium bifidum, Bifidobacteriumbreve, Bifidobacterium catenulatum, Bifidobacterium choerinum,Bifidobacterium dentium, Bifidobacterium gallicum, Bifidobacteriumkashiwanohense, Bifidobacterium longum, Bifidobacterium merycicum,Bifidobacterium pseudocatenulatum, Bifidobacterium pullorum,Bifidobacterium scardovii, Bifidobacterium sp., Bifidobacterium sp. 138,Bifidobacterium sp. 65947, Bifidobacterium sp. MSX5B, Bifidobacteriumstercoris, Bifidobacterium tsurumiense, Bilophila sp. 4_1_30, Bilophilawadsworthia, Blautia coccoides, Blautia faecis, Blautia glucerasea,Blautia hansenii, Blautia hydrogenotrophica, Blautia luti, Blautiaproducta, Blautia schinkii, Blautia sp. Ser5, Blautia sp. Ser8, Blautiasp. YHC-4, Blautia stercoris, Blautia wexlerae, Brachyspira aalborgi,Brachyspira pilosicoli, Brachyspira sp. HIS5, Bradyrhizobium sp.68A4SAPT, Brevibacterium massiliense, Brevibacterium paucivorans,Brevibacterium ravenspurgense, Butyricicoccus pullicaecorum,Butyricimonas sp. 180-3, Butyricimonas sp. 214-4, Butyricimonas sp. GD2,Butyricimonas synergistica, Butyricimonas virosa, Butyrivibriocrossotus, Campylobacter concisus, Campylobacter faecalis, Campylobactergracilis, Campylobacter hominis, Campylobacter rectus, Campylobacter sp.0402694-C0078, Campylobacter sp. 10_1_50, Campylobacter ureolyticus,Capnocytophaga gingivalis, Capnocytophaga sp. oral taxon 329,Carnobacterium maltaromaticum, Catabacter hongkongensis, Catenibacteriummitsuokai, Cellulosilyticum lentocellum, Cellulosilyticum ruminicola,Cetobacterium somerae, Christensenella minuta, Citrobacter amalonaticus,Citrobacter sp. BW4, Citrobacter sp. HD4.9, Cloacibacillus evryensis,Cloacibacillus porcorum, Cloacibacterium rupense, Clostridiumventriculi, Collinsella aerofaciens, Collinsella intestinalis,Collinsella tanakaei, Coprobacillus sp. D6, Coprobacter fastidiosus,Coprobacter secundus, Corynebacterium argentoratense, Corynebacteriumcanis, Corynebacterium ciconiae, Corynebacterium diphtheriae,Corynebacterium durum, Corynebacterium epidermidicanis, Corynebacteriumfrankenforstense, Corynebacterium freiburgense, Corynebacteriumglucuronolyticum, Corynebacterium mastitidis, Corynebacteriummatruchotii, Corynebacterium sp., Corynebacterium sp. 713182/2012,Corynebacterium sp. NML 97-0186, Corynebacterium sp. NML96-0085,Corynebacterium sp. full20, Corynebacterium spheniscorum,Corynebacterium ulcerans, Corynebacterium vitaeruminis, Cronobacterdublinensis, Cronobacter turicensis, Cutibacterium acnes, Cutibacteriumavidum, Deinococcus geothermalis, Delftia lacustris, Delftia sp.BN-SKY3, Dermabacter hominis, Dermabacter sp. HFH0086, Desulfovibriodesulfuricans, Desulfovibrio fairfieldensis, Desulfovibrio intestinalis,Desulfovibrio sp., Desulfovibrio sp. 3_1_syn3, Desulfovibrio sp.6_1_46AFAA, Desulfovibrio sp. G11, Desulfovibrio sp. LNB2, Desulfovibriosp. UNSW3caefatS, Dialister invisus, Dialister pneumosintes, Dialisterpropionicifaciens, Dialister sp. E2_20, Dialister sp. S4-23, Dialistersp. S7MSR5, Dialister succinatiphilus, Dielma fastidiosa, Dolosigranulumpigrum, Dorea formicigenerans, Dorea longicatena, Dysgonomonas gadei,Dysgonomonas oryzarvi, Eggerthella lenta, Eggerthella sinensis,Eggerthella sp. E1, Eggerthella sp. HGA1, Eisenbergiella tayi,Enterobacter cloacae, Enterobacter sp. BS2-1, Enterobacter sp. SPSA1,Enterobacter sp. UDC345, Enterococcus durans, Enterococcus faecalis,Enterococcus faecium, Enterococcus gallinarum, Enterococcus hirae,Enterococcus pallens, Enterococcus raffinosus, Enterococcus sp. C6I11,Enterococcus sp. SI-4, Enterorhabdus caecimuris, Enterorhabdusmucosicola, Eremococcus coleocola, Erysipelatoclostridium ramosum,Eubacterium limosum, Eubacterium sp. SA11, Facklamia languida, Facklamiasp. 1440-97, Facklamia sp. 164-92, Faecalibacterium prausnitzii,Faecalibacterium sp. canine oral taxon 147, Finegoldia sp. BV3C29,Finegoldia sp. S8 F7, Finegoldia sp. S9 AA1-5, Flavonifractor plautii,Fusicatenibacter saccharivorans, Fusobacterium equinum, Fusobacteriummortiferum, Fusobacterium necrogenes, Fusobacterium nucleatum,Fusobacterium periodonticum, Fusobacterium sp. ACB2, Fusobacterium sp.AS2, Fusobacterium sp. CM1, Fusobacterium sp. CM21, Fusobacterium sp.DJF_B100, Fusobacterium sp. OBRC1, Fusobacterium ulcerans, Fusobacteriumvarium, Gardnerella sp. S3PF20, Gardnerella vaginalis, Gemellaasaccharolytica, Gemella sp. 933-88, Globicatella sanguinis,Globicatella sulfidifaciens, Gordonibacter pamelaeae, Granulicatellaadiacens, Granulicatella elegans, Haemophilus influenzae, Haemophilusparainfluenzae, Hafnia alvei, Helcococcus kunzii, Helcococcusseattlensis, Helcococcus sueciensis, Herbaspirillum seropedicae,Herbaspirillum sp. AU13035, Herbaspirillum sp. YR522, Holdemaniafiliformis, Howardella ureilytica, Hydrogenophilus islandicus,Intestinimonas butyriciproducens, Jonquetella anthropi, Klebsiellaoxytoca, Klebsiella pneumoniae, Klebsiella sp. B12, Klebsiella sp.SOR89, Kluyvera georgiana, Lachnoanaerobaculum sp. OBRC5-5, Lachnospirapectinoschiza, Lactobacillus acidophilus, Lactobacillus animalis,Lactobacillus curvatus, Lactobacillus delbrueckii, Lactobacillus faecis,Lactobacillus fermentum, Lactobacillus fornicalis, Lactobacillusgasseri, Lactobacillus iners, Lactobacillus jensenii, Lactobacillusjohnsonii, Lactobacillus kefiranofaciens, Lactobacillus kefiri,Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillus pontis,Lactobacillus rhamnosus, Lactobacillus ruminis, Lactobacillussalivarius, Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. Akhmr01,Lactobacillus sp. BL302, Lactobacillus sp. C30An8, Lactobacillus sp.C4I1, Lactobacillus sp. C4I2, Lactobacillus sp. CR-609S, Lactobacillussp. Mbohs2t7, Lactobacillus sp. S16, Lactobacillus sp. TAB-26,Lactobacillus sp. Thmr02, Lactobacillus sp. oral taxon 052,Lactobacillus vaginalis, Lactococcus raffinolactis, Lactococcus sp. D2,Lactococcus sp. MH5-2, Lactococcus sp. STM1, Lactococcus sp. TPIMJ,Lactococcus sp. TP2MJ, Lactonifactor longoviformis, Lautropia sp. TeTO,Leuconostoc gelidum, Leuconostoc inhae, Leuconostoc lactis, Leuconostocmesenteroides, Leuconostoc sp. C714, Lysinibacillus sp. SJ2SN2,Lysinibacillus sphaericus, Mannheimia varigena, Megamonas funiformis,Megamonas rupellensis, Megasphaera genomosp. C1, Megasphaeramassiliensis, Megasphaera micronuciformis, Megasphaera sp. BS-4,Megasphaera sp. BV3C16-1, Megasphaera sp. DNF00872, Megasphaera sp.DNF00912, Megasphaera sp. S6-MB2, Megasphaera sp. TrE9262, Megasphaerasp. UPII 135-E, Megasphaera sp. UPII 199-6, Mesorhizobium loti,Mesorhizobium sp. mat916, Methanobrevibacter smithii, Methanobrevibactersp., Methanosphaera cuniculi, Methanosphaera stadtmanae,Methylobacterium sp. CBMB45, Methylobacterium sp. RK-2008-1, Mitsuokellamultacida, Mitsuokella sp. DJF_RR21, Mitsuokella sp. TM-10, Mobiluncuscurtisii, Mobiluncus mulieris, Mogibacterium timidum, Moraxella sp.WB19-16, Morganella morganii, Murdochiella asaccharolytica, Murdochiellasp. S5-A16, Murdochiella sp. S9 PR-10, Negativicoccus succinicivorans,Neisseria flavescens, Neisseria mucosa, Nosocomiicoccus ampullae,Ochrobactrum sp. SCTS14, Odoribacter splanchnicus, Oligella urethralis,Olsenella sp. 1183, Olsenella sp. S9 HS-6, Oribacterium sp. CM12,Oribacterium sp. OBRC12, Oscillibacter sp. 1-3, Oscillibactervalericigenes, Oscillospira guilliermondii, Pantoea sp. CWB304,Parabacteroides chinchillae, Parabacteroides distasonis, Parabacteroidesfaecis, Parabacteroides goldsteinii, Parabacteroides gordonii,Parabacteroides johnsonii, Parabacteroides merdae, Parabacteroides sp.20_3, Parabacteroides sp. D13, Parabacteroides sp. D25, Parabacteroidessp. J1502, Parabacteroides sp. dnLKV8, Paraeggerthella hongkongensis,Paraprevotella clara, Paraprevotella xylaniphila, Parasporobacteriumpaucivorans, Parasutterella excrementihominis, Parvimonas micra,Parvimonas sp. oral taxon 393, Pediococcus argentinicus, Pediococcus sp.310702, Pediococcus sp. MFC1, Pelomonas aquatica, Peptococcus sp. S9Pr-12, Peptococcus sp. canine oral taxon 334, Peptoniphilus duerdenii,Peptoniphilus indolicus, Peptoniphilus koenoeneniae, Peptoniphiluslacrimalis, Peptoniphilus sp. 1-14, Peptoniphilus sp. 2002-2300004,Peptoniphilus sp. 2002-38328, Peptoniphilus sp. 7-2, Peptoniphilus sp.BV3AC2, Peptoniphilus sp. DNF00192, Peptoniphilus sp. DNF00840,Peptoniphilus sp. JCM 8143, Peptoniphilus sp. S9 PR-13, Peptoniphilussp. gpac018A, Peptoniphilus sp. oral taxon 375, Peptoniphilus sp. oraltaxon 836, Peptostreptococcus stomatis, Phascolarctobacterium faecium,Phascolarctobacterium sp. 377, Phascolarctobacterium sp. canine oraltaxon 149, Phascolarctobacterium succinatutens, Porphyromonasasaccharolytica, Porphyromonas bennonis, Porphyromonas sp. 2024b,Porphyromonas sp. S8 86-12, Porphyromonas uenonis, Prevotella amnii,Prevotella buccalis, Prevotella nigrescens, Prevotella oris, Prevotellasp. S4-10, Prevotella sp. WAL 2039G, Propionibacterium freudenreichii,Propionibacterium sp. KPL1844, Propionibacterium sp. KPL2005,Propionibacterium sp. MSP09A, Proteus mirabilis, Pseudobutyrivibrioruminis, Pseudoclavibacter bifida, Pseudoclavibacter sp. Timone,Pseudoflavonifractor capillosus, Pseudomonas citronellolis, Pseudomonasmonteilii, Pseudomonas sp. a101-18-2, Pyramidobacter piscolens, Rahnellasp. BSP18, Rahnella sp. FB303, Rhizobium sp. T45, Rikenella microfusus,Robinsoniella sp. KNHs210, Romboutsia lituseburensis, Roseburiacecicola, Roseburia hominis, Roseburia intestinalis, Roseburiainulinivorans, Roseburia sp. 11SE39, Roseburia sp. 499, Roseburia sp.DJF_RR73, Rothia dentocariosa, Rothia mucilaginosa, Rothia sp. BBH4,Rothia sp. RV13, Rothia sp. THG-N7, Salmonella enterica, Selenomonas sp.Ycb08, Serratia nematodiphila, Shinella sp. DR33, Slackia equolifaciens,Slackia faecicanis, Slackia piriformis, Slackia sp. NATTS, Sneathiasanguinegens, Sphingomonas sp. 24T, Sporomusa sphaeroides,Staphylococcus aureus, Staphylococcus equorum, Staphylococcus sp. C9I2,Stenotrophomonas sp. C-S-TSA3, Stenotrophomonas sp. KITS-1,Streptococcus anginosus, Streptococcus australis, Streptococcusdentirousetti, Streptococcus dysgalactiae, Streptococcus equinus,Streptococcus gordonii, Streptococcus mutans, Streptococcusparasanguinis, Streptococcus pasteurianus, Streptococcus peroris,Streptococcus sobrinus, Streptococcus sp. 11aTha1, Streptococcus sp.2011_Ileo_MS_A10, Streptococcus sp. 2011_Oral_MS_A3, Streptococcus sp.2011_Oral_MS_D12, Streptococcus sp. 324402, Streptococcus sp. GMD6S,Streptococcus sp. S16-11, Streptococcus suis, Streptococcusthermophilus, Subdoligranulum variabile, Succinatimonas hippei,Sutterella sp. 252, Sutterella sp. YIT 12072, Sutterella stercoricanis,Sutterella wadsworthensis, Terrisporobacter glycolicus, Tessaracoccuslapidicaptus, Trueperella bernardiae, Turicibacter sanguinis,Turicibacter sp. LA62, Vagococcus teuberi, Varibaculum cambriense,Varibaculum sp. CCUG 61255, Variovorax sp. TA_DQ, Veillonella dispar,Veillonella montpellierensis, Veillonella parvula, Veillonella ratti,Veillonella seminalis, Veillonella sp. 2011_Oral_VSA_B12, Veillonellasp. 2011_Oral_VSA_C9, Veillonella sp. 2011_Oral_VSA_D12, Veillonella sp.2011_Oral_VSA_D3, Veillonella sp. ADV 269.01, Veillonella sp. AS16,Veillonella sp. JL-2, Veillonella sp. oral taxon 780, Weissella cibaria,Weissella confusa, Weissella hellenica, Weissella sp. H1a, Yersiniaenterocolitica, [Collinsella] massiliensis, Abiotrophia,Acetanaerobacterium, Acetitomaculum, Acetivibrio, Acholeplasma,Achromobacter, Acidaminococcus, Acidovorax, Acinetobacter,Adlercreutzia, Aerococcus, Aeromonas, Aerosphaera, Akkermansia,Alistipes, Allobaculum, Alloprevotella, Alloscardovia, Anaerobacter,Anaerobacterium, Anaerococcus, Anaerofustis, Anaeroplasma, Anaerosinus,Anaerosporobacter, Anaerostipes, Anaerotruncus, Anaerovibrio,Anaerovorax, Arthrobacter, Arthrospira, Asaccharobacter, Asaccharospora,Asteroleplasma, Atopobium, Bacillus, Bacteroides, Barnesiella,Bifidobacterium, Bilophila, Blautia, Bosea, Brachyspira, Brevibacterium,Butyriciccus, icous, Butyricimonas, Butyrivibrio, Caldicoprobacter,Candidatus Methanomethylophilus, Candidatus Soleaferrea, CandidatusStoquefichus, Capnocytophaga, Carnobacterium, Catabacter,Catenibacterium, Cellulosilyticum, Centipeda, Cetobacterium,Christensenella, Citrobacter, Cloacibacillus, Cloacibacterium,Clostridioides, Clostridium, Collinsella, Comamonas, Coprobacillus,Coprobacter, Corynebacterium, Cryobacterium, Defluviimonas, Deinococcus,Denitratisoma, Denitrobacterium, Dermabacter, Desulfovibrio, Dielma,Dolosigranulum, Dorea, Dysgonomonas, Eggerthella, Eisenbergiella,Elusimicrobium, Enterobacter, Enterorhabdus, Epulopiscium, Eremococcus,Erysipelatoclostridium, Eubacterium, Faecalibacterium, Fastidiosipila,Finegoldia, Flavobacterium, Flavonifractor, Fusicatenibacter,Fusobacterium, Gardnerella, Gelria, Globicatella, Gordonibacter,Granulicatella, Haemophilus, Hafnia, Helcococcus, Helicobacter,Herbaspirillum, Hespellia, Holdemania, Howardella,Hydrogenoanaerobacterium, Hydrogenophilus, Intestinibacter,Intestinimonas, Jonquetella, Klebsiella, Kluyvera, Lachnoanaerobaculum,Lachnospira, Lactobacillus, Lactococcus, Lactonifactor, Lautropia,Leptotrichia, Leuconostoc, Lysinibacillus, Mannheimia, Marvinbryantia,Massilia, Megamonas, Megasphaera, Mesorhizobium, Methanobrevibacter,Methanosphaera, Mitsuokella, Mobiluncus, Mogibacterium, Moraxella,Morganella, Moryella, Murdochiella, Neisseria, Nocardioides,Nosocomiicoccus, Ochrobactrum, Odoribacter, Oligella, Oribacterium,Oscillibacter, Oscillospira, Pantoea, Papillibacter, Parabacteroides,Paraeggerthella, Paraprevotella, Parasporobacterium, Parasutterella,Pediococcus, Pelomonas, Peptoclostridium, Peptococcus, Peptoniphilus,Peptostreptococcus, Phascolarctobacterium, Phyllobacterium,Planomicrobium, Porphyromonas, Prevotella, Propionimicrobium,Proteiniclasticum, Proteiniphilum, Providencia, Pseudobutyrivibrio,Pseudoclavibacter, Pseudoflavonifractor, Pyramidobacter, Rahnella,Rhizobium, Rhodococcus, Rikenella, Robinsoniella, Romboutsia, Roseburia,Rothia, Ruminiclostridium, Salmonella, Sarcina, Sedimentibacter,Senegalimassilia, Serratia, Shinella, Shuttleworthia, Slackia, Sneathia,Solobacterium, Sphaerochaeta, Sphingobium, Sphingomonas, Sporobacter,Sporomusa, Stenotrophomonas, Streptococcus, Subdoligranulum,Succinatimonas, Succiniclasticum, Sutterella, Synergistes,Terrisporobacter, Tessaracoccus, Thalassospira, Trueperella,Turicibacter, Vagococcus, Variovorax, Victivallis, Weissella, Yersinia.23. The method of claim 12, wherein the first sleep-related conditioncomprises a bad sleep quality condition, wherein determining usermicrobiome features comprises determining the user microbiomecomposition features comprising a set of composition features associatedwith a mouth site and with at least one of: Abiotrophia defectiva,Achromobacter xylosoxidans, Acinetobacter sp. RBE2CD-114, Actinobacillusporcinus, Actinomyces cardiffensis, Actinomyces dentalis, Actinomycesgenomosp. C1, Actinomyces georgiae, Actinomyces graevenitzii,Actinomyces massiliensis, Actinomyces meyeri, Actinomyces neuii,Actinomyces odontolyticus, Actinomyces oris, Actinomyces sp. ICM41,Actinomyces sp. ICM47, Actinomyces sp. ICM54, Actinomyces sp. ICM58,Actinomyces sp. S6-Spd3, Actinomyces sp. ZSY-1, Actinomyces sp. canineoral taxon 417, Actinomyces sp. oral strain B19SC, Actinomyces sp. oralstrain Hal-1065, Actinomyces sp. oral taxon 170, Actinomyces sp. oraltaxon 175, Actinomyces sp. oral taxon 178, Actinomyces sp. oral taxon448, Actinomyces sp. ph3, Actinomyces viscosus, Adlercreutziaequolifaciens, Aerococcus christensenii, Aeromonas sp. B11, Aerosphaerataetra, Aggregatibacter actinomycetemcomitans, Aggregatibacteraphrophilus, Aggregatibacter segnis, Alistipes indistinctus, Alistipesmassiliensis, Alistipes putredinis, Alistipes shahii, Alistipes sp.EBA6-25cl2, Alistipes sp. HGB5, Alistipes sp. NML05A004, Alistipes sp.RMA 9912, Alloprevotella rava, Alloprevotella tannerae, Alloscardoviaomnicolens, Anaerobacillus alkalidiazotrophicus, Anaerococcus murdochii,Anaerococcus octavius, Anaerococcus provencensis, Anaerococcus sp.8404299, Anaerococcus sp. 8405254, Anaerococcus sp. 9401487,Anaerococcus sp. S8 87-3, Anaerococcus tetradius, Anaerococcusvaginalis, Anaeroglobus geminatus, Anaerosporobacter mobilis,Anaerostipes hadrus, Anaerostipes sp. 5_1_63FAA, Anaerotruncuscolihominis, Anoxybacillus sp. HT14, Aquabacterium sp. Aqua2,Arthrospira fusiformis, Asaccharospora irregularis, Atopobium parvulum,Atopobium rimae, Atopobium sp. DMCT15023, Atopobium sp. ICM57,Bacteroides acidifaciens, Bacteroides caccae, Bacteroides clarus,Bacteroides coprocola, Bacteroides coprophilus, Bacteroides dorei,Bacteroides eggerthii, Bacteroides finegoldii, Bacteroides fragilis,Bacteroides intestinalis, Bacteroides massiliensis, Bacteroides nordii,Bacteroides ovatus, Bacteroides plebeius, Bacteroides salyersiae,Bacteroides sp. 2_2_4, Bacteroides sp. 3_1_40A, Bacteroides sp. AR20,Bacteroides sp. AR29, Bacteroides sp. D22, Bacteroides sp. DJF_B097,Bacteroides sp. EBA5-17, Bacteroides sp. J1511, Bacteroides sp. SLC1-38,Bacteroides sp. XB12B, Bacteroides stercoris, Bacteroides uniformis,Bacteroides vulgatus, Barnesiella intestinihominis, Bergerielladenitrificans, Bergeyella sp. AF14, Bifidobacterium adolescentis,Bifidobacterium animalis, Bifidobacterium bifidum, Bifidobacteriumdentium, Bifidobacterium kashiwanohense, Bifidobacterium longum,Bifidobacterium pseudocatenulatum, Bifidobacterium sp. MSX5B, Bilophilasp. 4_1_30, Bilophila wadsworthia, Blautia faecis, Blautia glucerasea,Blautia hansenii, Blautia luti, Blautia sp. YHC-4, Blautia stercoris,Blautia wexlerae, Bradyrhizobium sp. 68A4SAPT, Burkholderia sp. S32,Butyricimonas faecihominis, Butyricimonas paravirosa, Butyricimonas sp.214-4, Butyricimonas virosa, Campylobacter concisus, Campylobactergracilis, Campylobacter hominis, Campylobacter hyointestinalis,Campylobacter rectus, Campylobacter showae, Campylobacter sp. 10_1_50,Campylobacter sp. FOBRC14, Campylobacter sp. FOBRC15, Campylobacterureolyticus, Capnocytophaga genosp. AHN8471, Capnocytophaga gingivalis,Capnocytophaga granulosa, Capnocytophaga haemolytica, Capnocytophagaleadbetteri, Capnocytophaga sp. AHN10044, Capnocytophaga sp. AHN9576,Capnocytophaga sp. AHN9687, Capnocytophaga sp. CM59, Capnocytophaga sp.HS5_2W_I24, Capnocytophaga sp. P2 oral strain P4P_12, Capnocytophaga sp.oral strain A47ROY, Capnocytophaga sp. oral taxon 329, Capnocytophagasp. oral taxon 335, Capnocytophaga sp. oral taxon 336, Capnocytophagasp. oral taxon 338, Capnocytophaga sputigena, Cardiobacterium valvarum,Catonella morbi, Centipeda periodontii, Clostridioides difficile,Collinsella aerofaciens, Coprobacter fastidiosus, Corynebacterium durum,Corynebacterium freiburgense, Corynebacterium glucuronolyticum,Corynebacterium matruchotii, Corynebacterium sp., Corynebacterium sp.NML 97-0186, Corynebacterium ulcerans, Cryptobacterium curtum,Cutibacterium acnes, Cutibacterium granulosum, Delftia lacustris,Delftia sp. BN-SKY3, Desulfobulbus sp. oral taxon 041, Dialisterinvisus, Dialister pneumosintes, Dialister propionicifaciens, Dialistersp. E2_20, Dielma fastidiosa, Dorea formicigenerans, Dorea longicatena,Eggerthella sp. HGA1, Eggerthia catenaformis, Eikenella corrodens,Eikenella sp. MDA2346-4, Eisenbergiella tayi, Enterobacter sp. BS2-1,Erysipelatoclostridium ramosum, Faecalibacterium prausnitzii,Faecalibacterium sp. canine oral taxon 147, Filifactor alocis,Finegoldia magna, Finegoldia sp. S9 AA1-5, Flavonifractor plautii,Fretibacterium fastidiosum, Fusicatenibacter saccharivorans,Fusobacterium nucleatum, Fusobacterium periodonticum, Fusobacterium sp.ACB2, Fusobacterium sp. AS2, Fusobacterium sp. CM21, Fusobacterium sp.CM22, Fusobacterium sp. CM55, Fusobacterium sp. OBRC1, Fusobacteriumulcerans, Gemella morbillorum, Gemella sp. 933-88, Gemella sp. oralstrain C24KA, Gordonibacter pamelaeae, Granulicatella adiacens,Granulicatella elegans, Haemophilus influenzae, Haemophilusparainfluenzae, Herbaspirillum seropedicae, Holdemania filiformis,Howardella ureilytica, Janibacter sp. M3-5, Johnsonella ignava, Kingellaoralis, Kluyvera georgiana, Kocuria kristinae, Lachnoanaerobaculumorale, Lachnoanaerobaculum saburreum, Lachnoanaerobaculum sp. MSX33,Lachnoanaerobaculum sp. OBRC5-5, Lachnoanaerobaculum umeaense,Lachnospira pectinoschiza, Lactobacillus crispatus, Lactobacillusfermentum, Lactobacillus fornicalis, Lactobacillus gasseri,Lactobacillus jensenii, Lactobacillus paracasei, Lactobacillusplantarum, Lactobacillus rhamnosus, Lactobacillus salivarius,Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. Akhmr01, Lactobacillussp. BL302, Lactobacillus vaginalis, Lactococcus lactis, Lactococcus sp.MH5-2, Lautropia sp. TeTO, Leptotrichia buccalis, Leptotrichia genomosp.C1, Leptotrichia goodfellowii, Leptotrichia hofstadii, Leptotrichiahongkongensis, Leptotrichia shahii, Leptotrichia sp. PG10, Leptotrichiasp. PTE15, Leptotrichia sp. oral taxon 223, Leptotrichia sp. oral taxon225, Leptotrichia trevisanii, Leptotrichia wadei, Leuconostoc sp. C7I4,Lysinibacillus sphaericus, Mannheimia granulomatis, Megamonasfuniformis, Megasphaera genomosp. C1, Megasphaera micronuciformis,Megasphaera sp. UPII 199-6, Meiothermus silvanus, Methanobrevibactersmithii, Methanosphaera stadtmanae, Methylobacterium longum,Methylobacterium sp. RK-2008-1, Mogibacterium pumilum, Mogibacterium sp.CM50, Mogibacterium sp. CM96, Murdochiella sp. S9 PR-10, Mycoplasmafalconis, Mycoplasma sp. M221-9, Mycoplasma subdolum, Necropsobacterrosorum, Negativicoccus succinicivorans, Neisseria bacilliformis,Neisseria canis, Neisseria cinerea, Neisseria elongata, Neisseria flava,Neisseria flavescens, Neisseria macacae, Neisseria meningitidis,Neisseria mucosa, Neisseria oralis, Neisseria polysaccharea, Neisseriashayeganii, Neisseria sicca, Neisseria skkuensis, Neisseria sp.104(2012), Neisseria sp. CCUG 45853, Neisseria wadsworthii,Novosphingobium sediminicola, Odoribacter laneus, Odoribactersplanchnicus, Olsenella sp. F0004, Olsenella uli, Oribacterium sp. CM12,Oribacterium sp. OBRC12, Oribacterium sp. oral taxon 078, Oribacteriumsp. oral taxon 102, Oribacterium sp. oral taxon 108, Parabacteroidesdistasonis, Parabacteroides johnsonii, Parabacteroides merdae,Paraprevotella clara, Paraprevotella xylaniphila, Parasutterellaexcrementihominis, Parvimonas micra, Parvimonas sp. oral taxon 110,Parvimonas sp. oral taxon 393, Peptococcus sp. oral taxon 168,Peptoniphilus lacrimalis, Peptoniphilus sp. 1-14, Peptoniphilus sp.2002-2300004, Peptoniphilus sp. 2002-38328, Peptoniphilus sp. 7-2,Peptoniphilus sp. S9 PR-13, Peptoniphilus sp. gpac018A,Peptostreptococcus anaerobius, Peptostreptococcus stomatis,Phascolarctobacterium faecium, Phascolarctobacterium sp. 377,Phascolarctobacterium succinatutens, Phyllobacterium sp. T50,Porphyromonas asaccharolytica, Porphyromonas bennonis, Porphyromonascatoniae, Porphyromonas endodontalis, Porphyromonas gingivalis,Porphyromonas gulae, Porphyromonas somerae, Porphyromonas sp. 2024b,Porphyromonas sp. S8 86-12, Porphyromonas uenonis, Prevotella amnii,Prevotella aurantiaca, Prevotella bivia, Prevotella buccalis, Prevotelladisiens, Prevotella intermedia, Prevotella maculosa, Prevotella micans,Prevotella nanceiensis, Prevotella oralis, Prevotella oris, Prevotellaoulorum, Prevotella pallens, Prevotella sp. HJM029, Prevotella sp.S4-10, Prevotella sp. Smarlab 121567, Prevotella sp. WAL 2039G,Prevotella sp. oral taxon 299, Prevotella timonensis, Propionibacteriumacidifaciens, Propionibacterium sp. ‘Oral Taxon 191’, Propionibacteriumsp. MSP09A, Propionibacterium sp. V07/12348, Pseudoflavonifractorcapillosus, Pseudomonas sp. KB23, Pseudomonas sp. a111-5, Pseudomonassyringae, Pseudopropionibacterium propionicum, Ralstonia sp. S2.MAC.005,Rodentibacter pneumotropicus, Roseburia cecicola, Roseburia faecis,Roseburia hominis, Roseburia intestinalis, Roseburia inulinivorans,Roseburia sp. 11SE39, Rothia aeria, Rothia dentocariosa, Rothiamucilaginosa, Rothia sp. CCUG 25688, Rothia sp. THG-N7, Rothia sp.THG-T3, Scardovia wiggsiae, Selenomonas genomosp. P5, Selenomonas sp.CM52, Selenomonas sputigena, Shinella sp. DR33, Shuttleworthia sp. oraltaxon G69, Simonsiella muelleri, Slackia exigua, Slackia sp. S8 F4,Sneathia sanguinegens, Solobacterium moorei, Solobacterium sp. S4-A19,Sphingomonas sp. 540, Staphylococcus epidermidis, Staphylococcussaprophyticus, Staphylococcus sp. 334802, Staphylococcus sp. C9I2,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. NB3, Stomatobaculumlongum, Streptococcus agalactiae, Streptococcus australis, Streptococcusdentirousetti, Streptococcus equinus, Streptococcus gordonii,Streptococcus intermedius, Streptococcus mitis, Streptococcus mutans,Streptococcus parasanguinis, Streptococcus peroris, Streptococcus sp.11aTha1, Streptococcus sp. 2011_Oral_MS_A3, Streptococcus sp.2011_Oral_MS_H4, Streptococcus sp. BS35a, Streptococcus sp. GMD6S,Streptococcus sp. oral taxon G59, Streptococcus sp. oral taxon G63,Streptococcus thermophilus, Subdoligranulum variabile, Sutterella sp.252, Sutterella sp. YIT 12072, Sutterella stercoricanis, Sutterellawadsworthensis, Tannerella forsythia, Tannerella sp. oral taxon HOT-286,Terrisporobacter glycolicus, Tessaracoccus lapidicaptus, Turicibactersanguinis, Vagococcus sp. SIX2(2011), Varibaculum sp. CCUG 45114,Veillonella atypica, Veillonella dispar, Veillonella parvula,Veillonella rodentium, Veillonella rogosae, Veillonella sp.2011_Oral_VSA_B12, Veillonella sp. 2011_Oral_VSA_C9, Veillonella sp.2011_Oral_VSA_D3, Veillonella sp. 6_1_27, Veillonella sp. ADV 269.01,Veillonella sp. AS16, Veillonella sp. CM60, Veillonella sp. JL-2,Veillonella sp. MSA12, Veillonella sp. oral taxon 780, Veillonellatobetsuensis, Abiotrophia, Acetitomaculum, Acholeplasma, Achromobacter,Acinetobacter, Actinobacillus, Actinomyces, Adlercreutzia, Aerococcus,Aeromonas, Aerosphaera, Aggregatibacter, Akkermansia, Alistipes,Alloprevotella, Alloscardovia, Alysiella, Anaerobacillus, Anaerococcus,Anaeroplasma, Anaerosporobacter, Anaerostipes, Anaerotruncus,Anoxybacillus, Aquabacterium, Arcanobacterium, Arthrospira,Asaccharospora, Asteroleplasma, Atopobium, Bacillus, Bacteroides,Barnesiella, Bergeriella, Bergeyella, Bilophila, Blautia,Bradyrhizobium, Burkholderia, Butyricimonas, Butyrivibrio,Campylobacter, Candidatus Saccharimonas, Candidatus Soleaferrea,Capnocytophaga, Cardiobacterium, Catenibacterium, Catonella, Centipeda,Chryseobacterium, Cloacibacterium, Clostridium, Collinsella, Comamonas,Coprobacter, Corynebacterium, Cryptobacterium, Cutibacterium,Deinococcus, Delftia, Desulfobulbus, Desulfovibrio, Dialister, Dorea,Eggerthia, Eikenella, Eisenbergiella, Enterobacter, Enterococcus,Enterorhabdus, Erysipelatoclostridium, Faecalibacterium, Filifactor,Finegoidia, Flavobacterium, Flavonifractor, Fretibacterium,Fusicatenibacter, Fusobacterium, Gemella, Gordonibacter, Granulicatella,Haemophilus, Herbaspirillum, Hespellia, Holdemania, Howardella,Intestinibacter, Intestinimonas, Janibacter, Johnsonella, Kingella,Klebsiella, Kluyvera, Kocuria, Lachnoanaerobaculum, Lachnospira,Lactobacillus, Lactococcus, Lactonifactor, Lautropia, Leptotrichia,Leuconostoc, Lysinibacillus, Mannheimia, Marvinbryantia, Megamonas,Megasphaera, Methanobrevibacter, Methanosphaera, Methylobacterium,Mobiluncus, Mogibacterium, Moraxella, Moryella, Murdochiella,Mycobacterium, Mycoplasma, Necropsobacter, Negativicoccus, Neisseria,Novosphingobium, Odoribacter, Olsenella, Oribacterium, Oscillibacter,Oscillospira, Pantoea, Parabacteroides, Parasutterella, Parvimonas,Pasteurella, Peptoclostridium, Peptococcus, Peptoniphilus,Peptostreptococcus, Phascolarctobacterium, Phyllobacterium,Planomicrobium, Porphyromonas, Prevotella, Propionibacterium,Pseudobutyrivibrio, Pseudoflavonifractor, Pseudomonas, Pyramidobacter,Ralstonia, Rhodobacter, Robinsoniella, Romboutsia, Roseburia, Rothia,Sarcina, Scardovia, Selenomonas, Senegalimassilia, Shinella,Shuttleworthia, Simonsiella, Slackia, Sneathia, Snodgrassella,Solobacterium, Staphylococcus, Stenotrophomonas, Stomatobaculum,Streptobacillus, Streptococcus, Subdoligranulum, Sutterella, Tannerella,Terrisporobacter, Tessaracoccus, Thalassospira, Trichococcus,Turicibacter, Vagococcus, Varibaculum, Veillonella, Victivallis,Abiotrophia defectiva, Achromobacter xylosoxidans, Acidovorax sp. LR05,Acinetobacter baumannii, Acinetobacter calcoaceticus, Acinetobacterhaemolyticus, Acinetobacter kyonggiensis, Acinetobacter sp.2002-2301217, Acinetobacter sp. 423D, Acinetobacter sp. C-S-PDA7,Acinetobacter sp. C049, Acinetobacter sp. HD5.2, Acinetobacter sp.RBE2CD-114, Acinetobacter sp. RBE2CD-76, Acinetobacter sp. RE 51,Acinetobacter sp. STE, Acinetobacter sp. T133, Acinetobacter sp.WB22-23, Acinetobacter ursingii, Actinobacillus porcinus, Actinobaculummassiliense, Actinomyces europaeus, Actinomyces georgiae, Actinomycesgerencseriae, Actinomyces israelii, Actinomyces massiliensis,Actinomyces neuii, Actinomyces radingae, Actinomyces sp. ICM54,Actinomyces sp. ICM58, Actinomyces sp. S4-C9, Actinomyces sp. oral taxon175, Actinomyces sp. oral taxon 448, Actinomyces sp. ph3, Actinomycesviscosus, Actinomycetospora sp. CAP 335, Aerococcus christensenii,Aerococcus sp. B43(2010), Aerococcus urinae, Aerococcus viridans,Aeromonas salmonicida, Aerosphaera taetra, Aggregatibacter aphrophilus,Aggregatibacter segnis, Akkermansia muciniphila, Albidovuluminexpectatum, Alishewanella sp. Mn5-6, Alistipes finegoldii, Alistipesinops, Alistipes putredinis, Alistipes shahii, Alistipes sp. EBA6-25cl2,Alistipes sp. NML05A004, Alloiococcus otitis, Alloprevotella rava,Alloprevotella tannerae, Anaerobacillus alkalidiazotrophicus,Anaerococcus hydrogenalis, Anaerococcus lactolyticus, Anaerococcusmurdochii, Anaerococcus octavius, Anaerococcus provencensis,Anaerococcus sp. 8404299, Anaerococcus sp. 8405254, Anaerococcus sp.9401487, Anaerococcus sp. PH9, Anaerococcus sp. S8 87-3, Anaerococcussp. S8 F2, Anaerococcus tetradius, Anaerococcus vaginalis, Anaeroglobusgeminatus, Anaerostipes sp. 5_1_63FAA, Anoxybacillus sp. HT14,Aquabacterium commune, Aquabacterium sp. Aqua2, Arthrobacter sp. T2-4,Arthrospira fusiformis, Atopobium minutum, Atopobium rimae, Atopobiumsp. S3PFAA1-4, Atopobium sp. S4-A11a, Atopobium vaginae, Aureimonasaltamirensis, Aureimonas phyllosphaerae, Bacillus cereus, Bacillusnanhaiisediminis, Bacillus niacini, Bacillus pseudofirmus, Bacillus sp.CBMAI 1158, Bacillus sp. DHT-33, Bacillus sp. T41, Bacteroidesacidifaciens, Bacteroides caccae, Bacteroides coprocola, Bacteroideseggerthii, Bacteroides fragilis, Bacteroides massiliensis, Bacteroidesovatus, Bacteroides salyersiae, Bacteroides sp. 2_2_4, Bacteroides sp.35AE37, Bacteroides sp. AR20, Bacteroides sp. AR29, Bacteroides sp. D22,Bacteroides sp. EBA5-17, Bacteroides sp. SLC1-38, Bacteroides stercoris,Bacteroides thetaiotaomicron, Bacteroides uniformis, Bacteroidesvulgatus, Barnesiella intestinihominis, Bergeyella sp. AF14, Bergeyellazoohelcum, Bibersteinia trehalosi, Bifidobacterium adolescentis,Bifidobacterium longum, Bifidobacterium stercoris, Bilophila sp. 4_1_30,Bilophila wadsworthia, Blastocatella fastidiosa, Blastococcusaggregatus, Blastococcus sp. 0705C6-3, Blastococcus sp. FXJ6.383,Blautia faecis, Blautia luti, Blautia sp. YHC-4, Blautia wexlerae, Boseasp. BIWAKO-01, Bosea sp. R-46060, Brachybacterium muris, Brachybacteriumsp. NIO-27, Brachybacterium sp. b110-100S, Brachymonas sp. canine oraltaxon 015, Bradyrhizobium sp. 68A4SAPT, Bradyrhizobium sp. CCBAU 53380,Bradyrhizobium sp. P-45, Brevibacterium massiliense, Brevibacteriumpaucivorans, Brevibacterium pityocampae, Brevibacterium sp. A9C6,Brevibacterium sp. MBTD_CMFRI_Br02, Brevundimonas diminuta,Brevundimonas sp. FXJ8.080, Brevundimonas sp. JW23.4a, Brevundimonas sp.V3M6, Brevundimonas subvibrioides, Burkholderia lata, Burkholderia sp.CBPB-HIM, Burkholderia sp. S32, Campylobacter concisus, Campylobactergracilis, Campylobacter hominis, Campylobacter showae, Capnocytophagagenosp. AHN8471, Capnocytophaga gingivalis, Capnocytophaga ochracea,Capnocytophaga sp. AHN10044, Capnocytophaga sp. AHN9756, Capnocytophagasp. CM59, Capnocytophaga sp. oral taxon 329, Capnocytophaga sp. oraltaxon 338, Capnocytophaga sputigena, Cardiobacterium hominis, Catonellamorbi, Centipeda periodontii, Chryseobacterium haifense,Chryseobacterium sp. BBCT14, Chryseobacterium sp. IIL-Nv8,Chryseobacterium sp. MH28, Chryseobacterium sp. R064, Chryseobacteriumsp. Y1D, Citrobacter sp. BW4, Cloacibacterium rupense, Clostridioidesdifficile, Collinsella aerofaciens, Comamonas sp. P-115, Comamonas sp.RV A09_23b, Corynebacterium atypicum, Corynebacterium canis,Corynebacterium caspium, Corynebacterium diphtheriae, Corynebacteriumdurum, Corynebacterium epidermidicanis, Corynebacterium felinum,Corynebacterium freiburgense, Corynebacterium glucuronolyticum,Corynebacterium mastitidis, Corynebacterium matruchotii, Corynebacteriumsp., Corynebacterium sp. 2300500, Corynebacterium sp. 713182/2012,Corynebacterium sp. NML 97-0186, Corynebacterium sp. jw37,Corynebacterium spheniscorum, Corynebacterium ulcerans, Cronobactersakazakii, Cryobacterium psychrotolerans, Cryptobacterium curtum,Curvibacter gracilis, Cutibacterium acnes, Cutibacterium avidum,Cutibacterium granulosum, Deinococcus antarcticus, Deinococcus sp. 3B1,Deinococcus sp. UAC-77, Delftia lacustris, Delftia sp. BN-SKY3,Dermabacter hominis, Dermabacter sp. HFH0086, Dermacoccusnishinomiyaensis, Dermacoccus sp. D2.1, Dermacoccus sp. Ellin183,Dermacoccus sp. Ellin185, Dermacoccus sp. SST-20, Desulfovibrio sp.,Dialister invisus, Dialister pneumosintes, Dialister propionicifaciens,Dialister sp. E2_200, Dialister sp. S7MSR5, Dolosigranulum pigrum, Doreaformicigenerans, Dorea longicatena, Effusibacillus pohliae, Eggerthellalenta, Eikenella corrodens, Eisenbergiella tayi, Enterobacter cloacae,Enterococcus sp. SI-4, Eremococcus coleocola, Exiguobacterium sibiricum,Exiguobacterium sp. icr3, Facklamia hominis, Facklamia languida,Facklamia sp. 164-92, Facklamia tabacinasalis, Faecalibacteriumprausnitzii, Faecalibacterium sp. canine oral taxon 147, Fastidiosipilasanguinis, Filifactor alocis, Finegoldia magna, Finegoldia sp. S9 AA1-5,Flavobacterium sp. EP372, Flavobacterium sp. bk_25, Fretibacteriumfastidiosum, Frigoribacterium sp. 181, Fusicatenibacter saccharivorans,Fusobacterium equinum, Fusobacterium nucleatum, Fusobacteriumperiodonticum, Fusobacterium russii, Fusobacterium sp. ACB2,Fusobacterium sp. AS2, Fusobacterium sp. CM21, Fusobacterium sp. CM22,Gardnerella sp. S3PF20, Gardnerella vaginalis, Gemella morbillorum,Gemella sp. 933-88, Granulicatella adiacens, Granulicatella elegans,Haemophilus influenzae, Haemophilus parainfluenzae, Halomonas pacifica,Herbaspirillum huttiense, Herbaspirillum seropedicae, Hydrogenophilusislandicus, Janibacter sp. IARI-RP17, Janibacter sp. M3-5,Jeotgalicoccus aerolatus, Johnsonella ignava, Jonquetella anthropi,Klebsiella oxytoca, Klebsiella pneumoniae, Kluyvera georgiana, Kocuriacarniphila, Kocuria kristinae, Kocuria marina, Kocuria rhizophila,Kocuria sp. BRI 36, Kocuria sp. FXJ6.339, Kocuria sp. LW2-LEVI2-W,Lachnoanaerobaculum saburreum, Lachnospira pectinoschiza, Lactobacilluscrispatus, Lactobacillus curvatus, Lactobacillus delbrueckii,Lactobacillus fornicalis, Lactobacillus gasseri, Lactobacillus jensenii,Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillussalivarius, Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. Akhmr01,Lactobacillus sp. CR-609S, Lactobacillus sp. TAB-26, Lactobacillusvaginalis, Lactococcus lactis, Lactococcus sp. MH5-2, Lautropia sp.TeTO, Leptotrichia buccalis, Leptotrichia hongkongensis, Leptotrichiashahii, Leptotrichia sp. oral taxon 225, Leptotrichia wadei, Leucobacteraridicollis, Leucobacter sp. LR-2006b, Leuconostoc carnosum, Leuconostoclactis, Leuconostoc mesenteroides, Luteimonas mephitis, Lysinibacillussp. SJ2SN2, Lysinibacillus sphaericus, Macrococcus brunensis,Macrococcus caseolyticus, Malassezia restricta, Massilia oculi,Megasphaera sp. BV3C16-1, Megasphaera sp. UPII 199-6, Meiothermussilvanus, Mesorhizobium loti, Mesorhizobium sp. RE 62, Mesorhizobium sp.mat916, Methanobrevibacter smithii, Methylobacterium adhaesivum,Methylobacterium sp. CBMB45, Methylobacterium sp. CCGE4019,Methylobacterium sp. Gh-143, Methylobacterium sp. RK-200008-1,Microbacterium lacticum, Microbacterium sp. PcRB024, Microbacteriumyannicii, Micrococcus luteus, Micrococcus sp. WB18-01, Microlunatusphosphovorus, Microvirga aerilata, Microvirga sp. BR10193, Microvirgasp. TSX10-2, Mobiluncus mulieris, Modestobacter multiseptatus,Mogibacterium pumilum, Moraxella catarrhalis, Moraxella lincolnii,Moraxella nonliquefaciens, Moraxella sp. BBN2P-02d, Moraxella sp.WB19-16, Murdochiella sp. S9 PR-10, Mycobacterium chelonae,Mycobacterium sp. KNUC297, Mycobacterium sp. UNC410CL29Cvi84,Negativicoccus succinicivorans, Neisseria canis, Neisseria elongata,Neisseria flavescens, Neisseria macacae, Neisseria meningitidis,Neisseria mucosa, Neisseria oralis, Neisseria shayeganii, Neisseriaskkuensis, Neisseria sp. CCUG 45853, Nocardioides mesophilus,Novosphingobium sediminicola, Novosphingobium sp. THA_AIK7, Ochrobactrumsp. FPY8, Ochrobactrum sp. SCTS14, Ochrobactrum tritici, Olsenella sp.F0004, Oribacterium sp. CM12, Oribacterium sp. oral taxon 078,Ornithinimicrobium sp. THG-GM43, Ornithinimicrobium sp. X1C, Pantoeaagglomerans, Pantoea gaviniae, Parabacteroides distasonis,Parabacteroides goldsteinii, Paraprevotella clara, Parasutterellaexcrementihominis, Parvimonas micra, Paucibacter toxinivorans,Pectobacterium carotovorum, Pedomicrobium ferrugineum, Pelomonasaquatica, Peptococcus niger, Peptococcus sp. oral taxon 168,Peptoniphilus coxii, Peptoniphilus duerdenii, Peptoniphilus lacrimalis,Peptoniphilus sp. 1-14, Peptoniphilus sp. 2002-2300004, Peptoniphilussp. 2002-38328, Peptoniphilus sp. 7-2, Peptoniphilus sp. DNF00840,Peptoniphilus sp. JCM 8143, Peptoniphilus sp. S9 PR-13, Peptoniphilussp. gpac018A, Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon836, Peptostreptococcus anaerobius, Peptostreptococcus stomatis,Phascolarctobacterium faecium, Photobacterium sp. squidInt_04,Phyllobacterium sp. T50, Planococcus sp. ljh-25, Porphyrobacter sp.NMC22, Porphyromonas asaccharolytica, Porphyromonas bennonis,Porphyromonas cangingivalis, Porphyromonas canoris, Porphyromonascatoniae, Porphyromonas endodontalis, Porphyromonas sp. 2026,Porphyromonas uenonis, Prevotella bivia, Prevotella buccalis, Prevotelladisiens, Prevotella intermedia, Prevotella micans, Prevotellananceiensis, Prevotella nigrescens, Prevotella oris, Prevotella oulorum,Prevotella pallens, Prevotella sp. S4-10, Prevotella sp. WAL 2039G,Propionibacterium sp. KPL1844, Propionibacterium sp. KPL2005,Propionibacterium sp. MSP09A, Propionibacterium sp. V07/12348,Propionimicrobium lymphophilum, Pseudoclavibacter bifida,Pseudoclavibacter sp. Timone, Pseudoflavonifractor capillosus,Pseudomonas aeruginosa, Pseudomonas agarici, Pseudomonas brenneri,Pseudomonas citronellolis, Pseudomonas graminis, Pseudomonas monteilii,Pseudomonas sp. BM5, Pseudomonas sp. CBMAI 1177, Pseudomonas sp. G1116,Pseudomonas sp. GmFRB023, Pseudomonas sp. KB23, Pseudomonas sp. KNUC378,Pseudomonas sp. PDD-31b-4, Pseudomonas sp. PKG89, Pseudomonas sp.PcFRB100, Pseudomonas sp. PcFRBllg9, Pseudomonas sp. a101-18-2,Pseudomonas syringae, Pseudonocardia sp. CC981102-15,Pseudopropionibacterium propionicum, Rahnella sp. BSP18, Ralstoniapickettii, Ralstonia sp. A52, Ralstonia sp. CCUG 46389, Ralstonia sp.S2.MAC.005, Raoultella ornithinolytica, Rhizobium etli, Rhizobium sp.10II, Rhizobium sp. T45, Rhizobium sp. sc-w, Rhodobacter capsulatus,Rhodococcus erythropolis, Rhodococcus sp. C056, Rhodopseudomonasboonkerdii, Rhodopseudomonas thermotolerans, Rodentibacterpneumotropicus, Roseburia faecis, Roseburia intestinalis, Roseburiainulinivorans, Roseburia sp. 11SE39, Rothia aeria, Rothia dentocariosa,Rothia mucilaginosa, Rothia sp. CCUG 25688, Rothia sp. THG-N7, Salanamultivorans, Selenomonas genomosp. P5, Shewanella sp. 8113, Shinella sp.DR33, Solobacterium moorei, Sphingobacterium mizutaii, Sphingobium sp.LC341, Sphingobium sp. MH60, Sphingomonas aerolata, Sphingomonasaquatilis, Sphingomonas dokdonensis, Sphingomonas oligophenolica,Sphingomonas paucimobilis, Sphingomonas sp. 24T, Sphingomonas sp. 540,Sphingomonas sp. CS81, Sphingomonas sp. PDD-26b-16, Staphylococcusaureus, Staphylococcus epidermidis, Staphylococcus equorum,Staphylococcus saprophyticus, Staphylococcus simulans, Staphylococcussp. 155b, Staphylococcus sp. 334802, Staphylococcus sp. 335602,Staphylococcus sp. C-D-MA2, Staphylococcus sp. C912, Staphylococcus sp.L10, Staphylococcus sp. WB18-16, Staphylococcus vitulinus,Stenotrophomonas sp. C-S-TSA3, Stenotrophomonas sp. I_63-LFP1A9B1,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. N017, Stenotrophomonassp. TV49May, Stenotrophomonas sp. Z2-S2, Streptococcus dysgalactiae,Streptococcus gordonii, Streptococcus mutans, Streptococcusparasanguinis, Streptococcus pneumoniae, Streptococcus sp. 11aTha1,Streptococcus sp. 2011_Ileo_MS_A10, Streptococcus sp. 2011_Oral_MS_A3,Streptococcus sp. BS35a, Streptococcus sp. GMD6S, Streptococcus sp. oraltaxon G59, Streptococcus sp. oral taxon G63, Streptococcus thermophilus,Sutterella stercoricanis, Tannerella forsythia, Tannerella sp. oraltaxon HOT-286, Tepidimonas sp. AK30, Terrisporobacter glycolicus,Tessaracoccus lapidicaptus, Tessaracoccus sp. SL014B-79A, Thermomo nasbrevis, Thermus sp., Turicibacter sanguinis, Varibaculum cambriense,Varibaculum sp. CCUG 45114, Variovorax sp. IMER-B2-7, Variovorax sp.MM43Nov, Veillonella montpellierensis, Veillonella rogosae, Veillonellaseminalis, Veillonella sp. 2011_Oral_VSA_D3, Veillonella sp. AS16,Veillonella sp. CM60, Veillonella sp. MSA12, Veillonella sp. oral taxon780, Weissella confusa, Weissella hellenica, Xanthomonas campestris,Yersinia enterocolitica, Abiotrophia, Acetitomaculum, Achromobacter,Acidiphilium, Acidovorax, Acinetobacter, Actinobacillus, Actinobaculum,Actinomyces, Actinomycetospora, Adhaeribacter, Aerococcus,Aeromicrobium, Aeromonas, Aerosphaera, Aggregatibacter, Albidovulum,Alicyclobacillus, Alishewanella, Alistipes, Alkalibacterium,Alkanindiges, Alloiococcus, Alloprevotella, Amnibacterium,Anaerobacillus, Anaerococcus, Anaeroglobus, Anaerosporobacter,Anaerostipes, Anoxybacillus, Aquabacterium, Arthrobacter, Arthrospira,Atopobium, Aurantimonas, Aureimonas, Bacillus, Bacteroides, Barnesiella,Bergeyella, Bifidobacterium, Bilophila, Blastococcus, Blautia, Bosea,Brachybacterium, Brachymonas, Brevibacterium, Brevundimonas,Brochothrix, Burkholderia, Campylobacter, Candidatus Protochlamydia,Candidatus Solibacter, Capnocytophaga, Cardiobacterium, Carnobacterium,Catenibacterium, Catonella, Caulobacter, Cellulomonas, Centipeda,Chelatococcus, Chroococcidiopsis, Chryseobacterium, Chthoniobacter,Citrobacter, Cloacibacterium, Clostridium, Collinsella, Comamonas,Conchiformibius, Cronobacter, Cryptobacterium, Curtobacterium,Curvibacter, Deinococcus, Delftia, Dermacoccus, Desulfovibrio,Dialister, Dielma, Dietzia, Dolosigranulum, Dorea, Dyadobacter,Eggerthella, Eisenbergiella, Empedobacter, Enterococcus,Epilithonimonas, Eremococcus, Erysipelatoclostridium, Exiguobacterium,Facklamia, Faecalibacterium, Ferruginibacter, Filifactor, Finegoldia,Flavisolibacter, Flavobacterium, Flavonifractor, Fretibacterium,Fusicatenibacter, Fusobacterium, Gallicola, Gardnerella, Georgenia,Granulicatella, Halomonas, Hespellia, Hydrogenophilus, Hymenobacter,Janibacter, Jeotgalicoccus, Jonquetella, Klebsiella, Kluyvera, Kocuria,Kytococcus, Lachnoanaerobaculum, Lachnospira, Lactobacillus,Lactococcus, Lautropia, Leptotrichia, Leuconostoc, Luteimonas,Lysinibacillus, Lysobacter, Macrococcus, Malassezia, Marvinbryantia,Massilia, Megasphaera, Meiothermus, Methanobrevibacter,Methylobacterium, Microbacterium, Micrococcus, Microlunatus, Microvirga,Mobiluncus, Modestobacter, Mogibacterium, Moraxella, Moryella,Murdochiella, Mycobacterium, Negativicoccus, Neisseria, Nitrosococcus,Nitrososphaera, Nocardia, Nocardioides, Novosphingobium, Odoribacter,Olsenella, Oribacterium, Ornithinimicrobium, Oscillibacter, Pantoea,Paraprevotella, Parasutterella, Parvimonas, Paucibacter, Pectobacterium,Pediococcus, Pedobacter, Pedomicrobium, Pelomonas, Peptoclostridium,Peptococcus, Peptoniphilus, Peptostreptococcus, Perlucidibaca,Phascolarctobacterium, Phenylobacterium, Phyllobacterium, Pirellula,Planctomyces, Planococcus, Planomicrobium, Porphyromonas, Prevotella,Propionibacterium, Propionimicrobium, Proteus, Pseudobutyrivibrio,Pseudoclavibacter, Pseudoflavonifractor, Pseudomonas, Pseudonocardia,Pseudorhodoferax, Pseudospirillum, Psychrobacter, Rahnella, Ralstonia,Raoultella, Rheinheimera, Rhizobium, Rhodobacter, Rhodococcus,Rhodopseudomonas, Romboutsia, Roseburia, Rothia, Rubellimicrobium,Rubrobacter, Salana, Sarcina, Selenomonas, Senegalimassilia, Shinella,Shuttleworthia, Singulisphaera, Solirubrobacter, Solobacterium,Sphingobacterium, Sphingomonas, Sporosarcina, Staphylococcus,Stenotrophomonas, Stomatobaculum, Streptococcus, Streptomyces,Sutterella, Tannerella, Tepidimonas, Terrisporobacter, Tessaracoccus,Thalassospira, Thermomonas, Thiobacillus, Truepera, Turicibacter,Varibaculum, Variovorax, Veillonella, Victivallis, Weissella,Williamsia, Xenophilus, Yersinia.
 24. The method of claim 12, whereinthe first sleep-related condition comprises a bad sleep qualitycondition, wherein determining user microbiome features comprisesdetermining the user microbiome composition features comprising a set ofcomposition features associated with a nose site and with at least oneof: Abiotrophia defectiva, Achromobacter xylosoxidans, Acidovorax sp.LR05, Acinetobacter baumannii, Acinetobacter calcoaceticus,Acinetobacter haemolyticus, Acinetobacter kyonggiensis, Acinetobactersp. 2002-2301217, Acinetobacter sp. 423D, Acinetobacter sp. C-S-PDA7,Acinetobacter sp. C049, Acinetobacter sp. HD5.2, Acinetobacter sp.RBE2CD-114, Acinetobacter sp. RBE2CD-76, Acinetobacter sp. RE 51,Acinetobacter sp. STE, Acinetobacter sp. T133, Acinetobacter sp.WB22-23, Acinetobacter ursingii, Actinobacillus porcinus, Actinobaculummassiliense, Actinomyces europaeus, Actinomyces georgiae, Actinomycesgerencseriae, Actinomyces israelii, Actinomyces massiliensis,Actinomyces neuii, Actinomyces radingae, Actinomyces sp. ICM54,Actinomyces sp. ICM58, Actinomyces sp. S4-C9, Actinomyces sp. oral taxon175, Actinomyces sp. oral taxon 448, Actinomyces sp. ph3, Actinomycesviscosus, Actinomycetospora sp. CAP 335, Aerococcus christensenii,Aerococcus sp. B43(2010), Aerococcus urinae, Aerococcus viridans,Aeromonas salmonicida, Aerosphaera taetra, Aggregatibacter aphrophilus,Aggregatibacter segnis, Akkermansia muciniphila, Albidovuluminexpectatum, Alishewanella sp. Mn5-6, Alistipes finegoldii, Alistipesinops, Alistipes putredinis, Alistipes shahii, Alistipes sp. EBA6-25cl2,Alistipes sp. NML05A004, Alloiococcus otitis, Alloprevotella rava,Alloprevotella tannerae, Anaerobacillus alkalidiazotrophicus,Anaerococcus hydrogenalis, Anaerococcus lactolyticus, Anaerococcusmurdochii, Anaerococcus octavius, Anaerococcus provencensis,Anaerococcus sp. 8404299, Anaerococcus sp. 8405254, Anaerococcus sp.9401487, Anaerococcus sp. PH9, Anaerococcus sp. S8 87-3, Anaerococcussp. S8 F2, Anaerococcus tetradius, Anaerococcus vaginalis, Anaeroglobusgeminatus, Anaerostipes sp. 5_1_63FAA, Anoxybacillus sp. HT14,Aquabacterium commune, Aquabacterium sp. Aqua2, Arthrobacter sp. T2-4,Arthrospira fusiformis, Atopobium minutum, Atopobium rimae, Atopobiumsp. S3PFAA1-4, Atopobium sp. S4-A11a, Atopobium vaginae, Aureimonasaltamirensis, Aureimonas phyllosphaerae, Bacillus cereus, Bacillusnanhaiisediminis, Bacillus niacini, Bacillus pseudofirmus, Bacillus sp.CBMAI 1158, Bacillus sp. DHT-33, Bacillus sp. T41, Bacteroidesacidifaciens, Bacteroides caccae, Bacteroides coprocola, Bacteroideseggerthii, Bacteroides fragilis, Bacteroides massiliensis, Bacteroidesovatus, Bacteroides salyersiae, Bacteroides sp. 2_2_4, Bacteroides sp.35AE37, Bacteroides sp. AR20, Bacteroides sp. AR29, Bacteroides sp. D22,Bacteroides sp. EBA5-17, Bacteroides sp. SLC1-38, Bacteroides stercoris,Bacteroides thetaiotaomicron, Bacteroides uniformis, Bacteroidesvulgatus, Barnesiella intestinihominis, Bergeyella sp. AF14, Bergeyellazoohelcum, Bibersteinia trehalosi, Bifidobacterium adolescentis,Bifidobacterium longum, Bifidobacterium stercoris, Bilophila sp. 4_1_30,Bilophila wadsworthia, Blastocatella fastidiosa, Blastococcusaggregatus, Blastococcus sp. 0705C6-3, Blastococcus sp. FXJ6.383,Blautia faecis, Blautia luti, Blautia sp. YHC-4, Blautia wexlerae, Boseasp. BIWAKO-01, Bosea sp. R-46060, Brachybacterium muris, Brachybacteriumsp. NIO-27, Brachybacterium sp. b110-100S, Brachymonas sp. canine oraltaxon 015, Bradyrhizobium sp. 68A4SAPT, Bradyrhizobium sp. CCBAU 53380,Bradyrhizobium sp. P-45, Brevibacterium massiliense, Brevibacteriumpaucivorans, Brevibacterium pityocampae, Brevibacterium sp. A9C6,Brevibacterium sp. MBTD_CMFRI_Br02, Brevundimonas diminuta,Brevundimonas sp. FXJ8.080, Brevundimonas sp. JW23.4a, Brevundimonas sp.V3M6, Brevundimonas subvibrioides, Burkholderia lata, Burkholderia sp.CBPB-HIM, Burkholderia sp. S32, Campylobacter concisus, Campylobactergracilis, Campylobacter hominis, Campylobacter showae, Capnocytophagagenosp. AHN8471, Capnocytophaga gingivalis, Capnocytophaga ochracea,Capnocytophaga sp. AHN10044, Capnocytophaga sp. AHN9756, Capnocytophagasp. CM59, Capnocytophaga sp. oral taxon 329, Capnocytophaga sp. oraltaxon 338, Capnocytophaga sputigena, Cardiobacterium hominis, Catonellamorbi, Centipeda periodontii, Chryseobacterium haifense,Chryseobacterium sp. BBCT14, Chryseobacterium sp. IIL-Nv8,Chryseobacterium sp. MH28, Chryseobacterium sp. R064, Chryseobacteriumsp. Y1D, Citrobacter sp. BW4, Cloacibacterium rupense, Clostridioidesdifficile, Collinsella aerofaciens, Comamonas sp. P-115, Comamonas sp.RV A09_23b, Corynebacterium atypicum, Corynebacterium canis,Corynebacterium caspium, Corynebacterium diphtheriae, Corynebacteriumdurum, Corynebacterium epidermidicanis, Corynebacterium felinum,Corynebacterium freiburgense, Corynebacterium glucuronolyticum,Corynebacterium mastitidis, Corynebacterium matruchotii, Corynebacteriumsp., Corynebacterium sp. 2300500, Corynebacterium sp. 713182/2012,Corynebacterium sp. NML 97-0186, Corynebacterium sp. jw37,Corynebacterium spheniscorum, Corynebacterium ulcerans, Cronobactersakazakii, Cryobacterium psychrotolerans, Cryptobacterium curtum,Curvibacter gracilis, Cutibacterium acnes, Cutibacterium avidum,Cutibacterium granulosum, Deinococcus antarcticus, Deinococcus sp. 3B1,Deinococcus sp. UAC-77, Delftia lacustris, Delftia sp. BN-SKY3,Dermabacter hominis, Dermabacter sp. HFH0086, Dermacoccusnishinomiyaensis, Dermacoccus sp. D2.1, Dermacoccus sp. Ellin183,Dermacoccus sp. Ellin185, Dermacoccus sp. SST-20, Desulfovibrio sp.,Dialister invisus, Dialister pneumosintes, Dialister propionicifaciens,Dialister sp. E2_20, Dialister sp. S7MSR5, Dolosigranulum pigrum, Doreaformicigenerans, Dorea longicatena, Effusibacillus pohliae, Eggerthellalenta, Eikenella corrodens, Eisenbergiella tayi, Enterobacter cloacae,Enterococcus sp. SI-4, Eremococcus coleocola, Exiguobacterium sibiricum,Exiguobacterium sp. icr3, Facklamia hominis, Facklamia languida,Facklamia sp. 164-92, Facklamia tabacinasalis, Faecalibacteriumprausnitzii, Faecalibacterium sp. canine oral taxon 147, Fastidiosipilasanguinis, Filifactor alocis, Finegoldia magna, Finegoldia sp. S9 AA1-5,Flavobacterium sp. EP372, Flavobacterium sp. bk_25, Fretibacteriumfastidiosum, Frigoribacterium sp. 181, Fusicatenibacter saccharivorans,Fusobacterium equinum, Fusobacterium nucleatum, Fusobacteriumperiodonticum, Fusobacterium russii, Fusobacterium sp. ACB2,Fusobacterium sp. AS2, Fusobacterium sp. CM21, Fusobacterium sp. CM22,Gardnerella sp. S3PF20, Gardnerella vaginalis, Gemella morbillorum,Gemella sp. 933-88, Granulicatella adiacens, Granulicatella elegans,Haemophilus influenzae, Haemophilus parainfluenzae, Halomonas pacifica,Herbaspirillum huttiense, Herbaspirillum seropedicae, Hydrogenophilusislandicus, Janibacter sp. IARI-RP17, Janibacter sp. M3-5,Jeotgalicoccus aerolatus, Johnsonella ignava, Jonquetella anthropi,Klebsiella oxytoca, Klebsiella pneumoniae, Kluyvera georgiana, Kocuriacarniphila, Kocuria kristinae, Kocuria marina, Kocuria rhizophila,Kocuria sp. BRI 36, Kocuria sp. FXJ6.339, Kocuria sp. LW2-LEVI2-W,Lachnoanaerobaculum saburreum, Lachnospira pectinoschiza, Lactobacilluscrispatus, Lactobacillus curvatus, Lactobacillus delbrueckii,Lactobacillus fornicalis, Lactobacillus gasseri, Lactobacillus jensenii,Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillussalivarius, Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. Akhmr01,Lactobacillus sp. CR-609S, Lactobacillus sp. TAB-26, Lactobacillusvaginalis, Lactococcus lactis, Lactococcus sp. MH5-2, Lautropia sp.TeTO, Leptotrichia buccalis, Leptotrichia hongkongensis, Leptotrichiashahii, Leptotrichia sp. oral taxon 225, Leptotrichia wadei, Leucobacteraridicollis, Leucobacter sp. LR-2006b, Leuconostoc carnosum, Leuconostoclactis, Leuconostoc mesenteroides, Luteimonas mephitis, Lysinibacillussp. SJ2SN2, Lysinibacillus sphaericus, Macrococcus brunensis,Macrococcus caseolyticus, Malassezia restricta, Massilia oculi,Megasphaera sp. BV3C16-1, Megasphaera sp. UPII 199-6, Meiothermussilvanus, Mesorhizobium loti, Mesorhizobium sp. RE 62, Mesorhizobium sp.mat916, Methanobrevibacter smithii, Methylobacterium adhaesivum,Methylobacterium sp. CBMB45, Methylobacterium sp. CCGE4019,Methylobacterium sp. Gh-143, Methylobacterium sp. RK-200008-1,Microbacterium lacticum, Microbacterium sp. PcRB024, Microbacteriumyannicii, Micrococcus luteus, Micrococcus sp. WB18-01, Microlunatusphosphovorus, Microvirga aerilata, Microvirga sp. BR10193, Microvirgasp. TSX10-2, Mobiluncus mulieris, Modestobacter multiseptatus,Mogibacterium pumilum, Moraxella catarrhalis, Moraxella lincolnii,Moraxella nonliquefaciens, Moraxella sp. BBN2P-02d, Moraxella sp.WB19-16, Murdochiella sp. S9 PR-10, Mycobacterium chelonae,Mycobacterium sp. KNUC297, Mycobacterium sp. UNC410CL29Cvi84,Negativicoccus succinicivorans, Neisseria canis, Neisseria elongata,Neisseria flavescens, Neisseria macacae, Neisseria meningitidis,Neisseria mucosa, Neisseria oralis, Neisseria shayeganii, Neisseriaskkuensis, Neisseria sp. CCUG 45853, Nocardioides mesophilus,Novosphingobium sediminicola, Novosphingobium sp. THA_AIK7, Ochrobactrumsp. FPY8, Ochrobactrum sp. SCTS14, Ochrobactrum tritici, Olsenella sp.F0004, Oribacterium sp. CM12, Oribacterium sp. oral taxon 078,Ornithinimicrobium sp. THG-GM43, Ornithinimicrobium sp. X1C, Pantoeaagglomerans, Pantoea gaviniae, Parabacteroides distasonis,Parabacteroides goldsteinii, Paraprevotella clara, Parasutterellaexcrementihominis, Parvimonas micra, Paucibacter toxinivorans,Pectobacterium carotovorum, Pedomicrobium ferrugineum, Pelomonasaquatica, Peptococcus niger, Peptococcus sp. oral taxon 168,Peptoniphilus coxii, Peptoniphilus duerdenii, Peptoniphilus lacrimalis,Peptoniphilus sp. 1-14, Peptoniphilus sp. 2002-2300004, Peptoniphilussp. 2002-38328, Peptoniphilus sp. 7-2, Peptoniphilus sp. DNF00840,Peptoniphilus sp. JCM 8143, Peptoniphilus sp. S9 PR-13, Peptoniphilussp. gpac018A, Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon836, Peptostreptococcus anaerobius, Peptostreptococcus stomatis,Phascolarctobacterium faecium, Photobacterium sp. squidInt_04,Phyllobacterium sp. T50, Planococcus sp. ljh-25, Porphyrobacter sp.NMC22, Porphyromonas asaccharolytica, Porphyromonas bennonis,Porphyromonas cangingivalis, Porphyromonas canoris, Porphyromonascatoniae, Porphyromonas endodontalis, Porphyromonas sp. 2026,Porphyromonas uenonis, Prevotella bivia, Prevotella buccalis, Prevotelladisiens, Prevotella intermedia, Prevotella micans, Prevotellananceiensis, Prevotella nigrescens, Prevotella oris, Prevotella oulorum,Prevotella pallens, Prevotella sp. S4-10, Prevotella sp. WAL 2039G,Propionibacterium sp. KPL1844, Propionibacterium sp. KPL2005,Propionibacterium sp. MSP09A, Propionibacterium sp. V07/12348,Propionimicrobium lymphophilum, Pseudoclavibacter bifida,Pseudoclavibacter sp. Timone, Pseudoflavonifractor capillosus,Pseudomonas aeruginosa, Pseudomonas agarici, Pseudomonas brenneri,Pseudomonas citronellolis, Pseudomonas graminis, Pseudomonas monteilii,Pseudomonas sp. BM5, Pseudomonas sp. CBMAI 1177, Pseudomonas sp. G1116,Pseudomonas sp. GmFRB023, Pseudomonas sp. KB23, Pseudomonas sp. KNUC378,Pseudomonas sp. PDD-31b-4, Pseudomonas sp. PKG89, Pseudomonas sp.PcFRB100, Pseudomonas sp. PcFRB119, Pseudomonas sp. a101-18-2,Pseudomonas syringae, Pseudonocardia sp. CC981102-15,Pseudopropionibacterium propionicum, Rahnella sp. BSP18, Ralstoniapickettii, Ralstonia sp. A52, Ralstonia sp. CCUG 46389, Ralstonia sp.S2.MAC.005, Raoultella ornithinolytica, Rhizobium etli, Rhizobium sp.10II, Rhizobium sp. T45, Rhizobium sp. sc-w, Rhodobacter capsulatus,Rhodococcus erythropolis, Rhodococcus sp. C056, Rhodopseudomonasboonkerdii, Rhodopseudomonas thermotolerans, Rodentibacterpneumotropicus, Roseburia faecis, Roseburia intestinalis, Roseburiainulinivorans, Roseburia sp. 11SE39, Rothia aeria, Rothia dentocariosa,Rothia mucilaginosa, Rothia sp. CCUG 25688, Rothia sp. THG-N7, Salanamultivorans, Selenomonas genomosp. P5, Shewanella sp. 8113, Shinella sp.DR33, Solobacterium moorei, Sphingobacterium mizutaii, Sphingobium sp.LC341, Sphingobium sp. MH60, Sphingomonas aerolata, Sphingomonasaquatilis, Sphingomonas dokdonensis, Sphingomonas oligophenolica,Sphingomonas paucimobilis, Sphingomonas sp. 24T, Sphingomonas sp. 540,Sphingomonas sp. CS81, Sphingomonas sp. PDD-26b-16, Staphylococcusaureus, Staphylococcus epidermidis, Staphylococcus equorum,Staphylococcus saprophyticus, Staphylococcus simulans, Staphylococcussp. 155b, Staphylococcus sp. 334802, Staphylococcus sp. 335602,Staphylococcus sp. C-D-MA2, Staphylococcus sp. C912, Staphylococcus sp.L10, Staphylococcus sp. WB18-16, Staphylococcus vitulinus,Stenotrophomonas sp. C-S-TSA3, Stenotrophomonas sp. I_63-LFP1A9B1,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. N017, Stenotrophomonassp. TV49May, Stenotrophomonas sp. Z2-S2, Streptococcus dysgalactiae,Streptococcus gordonii, Streptococcus mutans, Streptococcusparasanguinis, Streptococcus pneumoniae, Streptococcus sp. 11aTha1,Streptococcus sp. 2011_Ileo_MS_A10, Streptococcus sp. 2011_Oral_MS_A3,Streptococcus sp. BS35a, Streptococcus sp. GMD6S, Streptococcus sp. oraltaxon G59, Streptococcus sp. oral taxon G63, Streptococcus thermophilus,Sutterella stercoricanis, Tannerella forsythia, Tannerella sp. oraltaxon HOT-286, Tepidimonas sp. AK30, Terrisporobacter glycolicus,Tessaracoccus lapidicaptus, Tessaracoccus sp. SL014B-79A, Thermomo nasbrevis, Thermus sp., Turicibacter sanguinis, Varibaculum cambriense,Varibaculum sp. CCUG 45114, Variovorax sp. IMER-B2-7, Variovorax sp.MM43Nov, Veillonella montpellierensis, Veillonella rogosae, Veillonellaseminalis, Veillonella sp. 2011_Oral_VSA_D3, Veillonella sp. AS16,Veillonella sp. CM60, Veillonella sp. MSA12, Veillonella sp. oral taxon780, Weissella confusa, Weissella hellenica, Xanthomonas campestris,Yersinia enterocolitica, Abiotrophia, Acetitomaculum, Achromobacter,Acidiphilium, Acidovorax, Acinetobacter, Actinobacillus, Actinobaculum,Actinomyces, Actinomycetospora, Adhaeribacter, Aerococcus,Aeromicrobium, Aeromonas, Aerosphaera, Aggregatibacter, Albidovulum,Alicyclobacillus, Alishewanella, Alistipes, Alkalibacterium,Alkanindiges, Alloiococcus, Alloprevotella, Amnibacterium,Anaerobacillus, Anaerococcus, Anaeroglobus, Anaerosporobacter,Anaerostipes, Anoxybacillus, Aquabacterium, Arthrobacter, Arthrospira,Atopobium, Aurantimonas, Aureimonas, Bacillus, Bacteroides, Barnesiella,Bergeyella, Bifidobacterium, Bilophila, Blastococcus, Blautia, Bosea,Brachybacterium, Brachymonas, Brevibacterium, Brevundimonas,Brochothrix, Burkholderia, Campylobacter, Candidatus Protochlamydia,Candidatus Solibacter, Capnocytophaga, Cardiobacterium, Carnobacterium,Catenibacterium, Catonella, Caulobacter, Cellulomonas, Centipeda,Chelatococcus, Chroococcidiopsis, Chryseobacterium, Chthoniobacter,Citrobacter, Cloacibacterium, Clostridium, Collinsella, Comamonas,Conchiformibius, Cronobacter, Cryptobacterium, Curtobacterium,Curvibacter, Deinococcus, Delftia, Dermacoccus, Desulfovibrio,Dialister, Dielma, Dietzia, Dolosigranulum, Dorea, Dyadobacter,Eggerthella, Eisenbergiella, Empedobacter, Enterococcus,Epilithonimonas, Eremococcus, Erysipelatoclostridium, Exiguobacterium,Facklamia, Faecalibacterium, Ferruginibacter, Filifactor, Finegoldia,Flavisolibacter, Flavobacterium, Flavonifractor, Fretibacterium,Fusicatenibacter, Fusobacterium, Gallicola, Gardnerella, Georgenia,Granulicatella, Halomonas, Hespellia, Hydrogenophilus, Hymenobacter,Janibacter, Jeotgalicoccus, Jonquetella, Klebsiella, Kluyvera, Kocuria,Kytococcus, Lachnoanaerobaculum, Lachnospira, Lactobacillus,Lactococcus, Lautropia, Leptotrichia, Leuconostoc, Luteimonas,Lysinibacillus, Lysobacter, Macrococcus, Malassezia, Marvinbryantia,Massilia, Megasphaera, Meiothermus, Methanobrevibacter,Methylobacterium, Microbacterium, Micrococcus, Microlunatus, Microvirga,Mobiluncus, Modestobacter, Mogibacterium, Moraxella, Moryella,Murdochiella, Mycobacterium, Negativicoccus, Neisseria, Nitrosococcus,Nitrososphaera, Nocardia, Nocardioides, Novosphingobium, Odoribacter,Olsenella, Oribacterium, Ornithinimicrobium, Oscillibacter, Pantoea,Paraprevotella, Parasutterella, Parvimonas, Paucibacter, Pectobacterium,Pediococcus, Pedobacter, Pedomicrobium, Pelomonas, Peptoclostridium,Peptococcus, Peptoniphilus, Peptostreptococcus, Perlucidibaca,Phascolarctobacterium, Phenylobacterium, Phyllobacterium, Pirellula,Planctomyces, Planococcus, Planomicrobium, Porphyromonas, Prevotella,Propionibacterium, Propionimicrobium, Proteus, Pseudobutyrivibrio,Pseudoclavibacter, Pseudoflavonifractor, Pseudomonas, Pseudonocardia,Pseudorhodoferax, Pseudospirillum, Psychrobacter, Rahnella, Ralstonia,Raoultella, Rheinheimera, Rhizobium, Rhodobacter, Rhodococcus,Rhodopseudomonas, Romboutsia, Roseburia, Rothia, Rubellimicrobium,Rubrobacter, Salana, Sarcina, Selenomonas, Senegalimassilia, Shinella,Shuttleworthia, Singulisphaera, Solirubrobacter, Solobacterium,Sphingobacterium, Sphingomonas, Sporosarcina, Staphylococcus,Stenotrophomonas, Stomatobaculum, Streptococcus, Streptomyces,Sutterella, Tannerella, Tepidimonas, Terrisporobacter, Tessaracoccus,Thalassospira, Thermomonas, Thiobacillus, Truepera, Turicibacter,Varibaculum, Variovorax, Veillonella, Victivallis, Weissella,Williamsia, Xenophilus, Yersinia.
 25. The method of claim 12, whereinthe first sleep-related condition comprises a bad sleep qualitycondition, wherein determining user microbiome features comprisesdetermining the user microbiome composition features comprising a set ofcomposition features associated with a skin site and with at least oneof: Abiotrophia defectiva, Achromobacter xylosoxidans, Acinetobacterbaumannii, Acinetobacter radioresistens, Acinetobacter sp. 423D,Acinetobacter sp. C-S-NA3, Acinetobacter sp. C-S-PDA7, Acinetobacter sp.HD5.2, Acinetobacter sp. RBE2CD-114, Acinetobacter sp. RBE2CD-76,Acinetobacter sp. S2(2009), Acinetobacter sp. T133, Acinetobacterursingii, Actinobacillus porcinus, Actinomyces dentalis, Actinomycesgeorgiae, Actinomyces gerencseriae, Actinomyces graevenitzii,Actinomyces massiliensis, Actinomyces odontolyticus, Actinomycesradingae, Actinomyces sp. ICM41, Actinomyces sp. ICM54, Actinomyces sp.S4-C9, Actinomyces sp. canine oral taxon 374, Actinomyces sp. oral taxon175, Actinomyces sp. ph3, Actinoplanes auranticolor, Aeromonassalmonicida, Aeromonas sp. B11, Aerosphaera taetra, Aggregatibacteraphrophilus, Aggregatibacter segnis, Akkermansia muciniphila,Albidovulum inexpectatum, Alistipes finegoldii, Alistipes shahii,Alistipes sp. EBA6-25cl2, Alistipes sp. NML05A004, Alkanindigesillinoisensis, Alloiococcus otitis, Alloprevotella rava, Anaerobacillusalkalidiazotrophicus, Anaerococcus hydrogenalis, Anaerococcuslactolyticus, Anaerococcus murdochii, Anaerococcus octavius,Anaerococcus prevotii, Anaerococcus provencensis, Anaerococcus sp.8405254, Anaerococcus sp. 9401487, Anaerococcus sp. S8 F2, Anaerococcustetradius, Anaerococcus vaginalis, Anaerostipes hadrus, Anoxybacillussp. HT14, Aquabacterium sp. Aqua2, Aquamicrobium lusatiense,Aquaspirillum sp. canine oral taxon 091, Arthrobacter sp. LM27(2011),Arthrobacter sp. NIO-1057, Atopobium sp. S3MV24, Aureimonasphyllosphaerae, Bacillus cereus, Bacillus flexus, Bacillus pocheonensis,Bacillus pseudofirmus, Bacillus safensis, Bacillus sp. CBMAI 1158,Bacillus sp. T41, Bacteroides caccae, Bacteroides clarus, Bacteroidescoprocola, Bacteroides eggerthii, Bacteroides finegoldii, Bacteroidesfragilis, Bacteroides massiliensis, Bacteroides nordii, Bacteroidesovatus, Bacteroides plebeius, Bacteroides sp. 2_2_4, Bacteroides sp.35AE37, Bacteroides sp. AR20, Bacteroides sp. D22, Bacteroides sp.DJF_B097, Bacteroides sp. EBA5-17, Bacteroides sp. J1511, Bacteroidessp. XB12B, Bacteroides sp. XB44A, Bacteroides sp. canine oral taxon 040,Bacteroides stercoris, Bacteroides thetaiotaomicron, Bacteroidesuniformis, Bacteroides vulgatus, Barnesiella intestinihominis,Bergeyella sp. h1971d, Bibersteinia trehalosi, Bifidobacterium animalis,Bifidobacterium longum, Bilophila sp. 4_1_30, Blastococcus sp. FXJ6.383,Blautia faecis, Blautia luti, Blautia sp. YHC-4, Blautia stercoris,Blautia wexlerae, Bosea sp. B0.09-49, Bosea sp. BIWAKO-01, Bosea sp.R-46060, Brachybacterium faecium, Brachybacterium sp. NIO-27,Bradyrhizobium sp. CCBAU 53380, Brevibacterium pityocampae,Brevibacterium sp. A9C6, Brevibacterium sp. MBTD_CMFRI_Br02,Brevundimonas diminuta, Brevundimonas sp. JW23.4a, Brevundimonas sp.V3M6, Brevundimonas sp. a001-4, Brevundimonas subvibrioides, Brochothrixsp. MVP25, Burkholderia sp. S32, Butyricimonas virosa, Campylobactergracilis, Campylobacter ureolyticus, Capnocytophaga canimorsus,Capnocytophaga genosp. AHN8471, Capnocytophaga gingivalis,Capnocytophaga granulosa, Capnocytophaga ochracea, Capnocytophaga sp.oral taxon 338, Catonella morbi, Caulobacter sp., Cellulomonasdenverensis, Cellulosimicrobium cellulans, Cellulosimicrobium sp. 143-1,Centipeda periodontii, Chryseobacterium haifense, Chryseobacterium sp.MC10-6, Chryseobacterium sp. R31, Chryseobacterium sp. Y1D,Chryseobacterium sp. bk_19, Chryseobacterium sp. sptzw36,Chryseomicrobium imtechense, Citrobacter sp. BW4, Cloacibacteriumrupense, Clostridioides difficile, Collinsella aerofaciens, Collinsellaintestinalis, Comamonas jiangduensis, Comamonas sp. HM_AF10, Comamonassp. RV_F08_22d, Conchiformibius steedae, Corynebacterium argentoratense,Corynebacterium atypicum, Corynebacterium canis, Corynebacteriumcapitovis, Corynebacterium ciconiae, Corynebacterium diphtheriae,Corynebacterium durum, Corynebacterium epidermidicanis, Corynebacteriumfreiburgense, Corynebacterium glucuronolyticum, Corynebacteriummastitidis, Corynebacterium sp. 713182/2012, Corynebacterium sp. NML97-0186, Corynebacterium sp. jw37, Corynebacterium spheniscorum,Corynebacterium ulcerans, Curvibacter gracilis, Cutibacterium acnes,Cutibacterium avidum, Cutibacterium granulosum, Deinococcus antarcticus,Deinococcus sp. MN4-8, Delftia lacustris, Delftia sp. BN-SKY3,Dermabacter hominis, Dermacoccus nishinomiyaensis, Dermacoccus sp.Ellin185, Dermacoccus sp. SST-20, Desulfovibrio piger, Dialisterinvisus, Dialister micraerophilus, Dialister propionicifaciens,Dialister sp. S7MSR5, Dialister succinatiphilus, Dietzia cinnamea,Dietzia lutea, Dietzia sp. ISA13, Dolosigranulum pigrum, Duganella sp.5B, Eisenbergiella tayi, Elizabethkingia meningoseptica, Empedobacterfalsenii, Enterobacter cloacae, Enterococcus sp. C6I11, Enterococcus sp.SI-4, Erythrobacter sp. DHXJ15, Exiguobacterium sp. IT2, Exiguobacteriumsp. Sh3, Exiguobacterium sp. YS1, Exiguobacterium sp. icr3, Facklamialanguida, Faecalibacterium prausnitzii, Filifactor villosus, Finegoldiamagna, Finegoldia sp. BV3C29, Finegoldia sp. S8 F7, Finegoldia sp. S9AA1-5, Flavobacterium ceti, Flavobacterium sp. CS43, Flavonifractorplautii, Friedmanniella sp. Ellin171, Friedmanniella spumicola,Frigoribacterium sp. PDD-31b-8, Fusicatenibacter saccharivorans,Fusobacterium nucleatum, Fusobacterium periodonticum, Gardnerellavaginalis, Gemella morbillorum, Gemella sp. 933-88, Geobacillusstearothermophilus, Gordonia sputi, Gordonia terrae, Gordonibacterpamelaeae, Granulicatella adiacens, Granulicatella elegans,Haematobacter massiliensis, Haemophilus parainfluenzae, Halomonaspacifica, Herbaspirillum huttiense, Herbaspirillum seropedicae,Hymenobacter sp. MIC2056, Janibacter sp. IARI-RP17, Jeotgalicoccusaerolatus, Jeotgalicoccus nanhaiensis, Jeotgalicoccus sp. AD9, Kingellaoralis, Klebsiella pneumoniae, Klebsiella sp. B12, Kluyvera georgiana,Knoellia sp. BA3(2011), Knoellia sp. Zs20, Kocuria kristinae, Kocuriarhizophila, Kocuria sp. FXJ6.339, Kytococcus sp. YB227,Lachnoanaerobaculum saburreum, Lachnoanaerobaculum sp. OBRC5-5,Lachnospira pectinoschiza, Lactobacillus crispatus, Lactobacilluscurvatus, Lactobacillus delbrueckii, Lactobacillus fornicalis,Lactobacillus iners, Lactobacillus jensenii, Lactobacillus plantarum,Lactobacillus salivarius, Lactobacillus sp. 7_1_47FAA, Lactobacillus sp.BL302, Lactobacillus sp. CR-609S, Lactobacillus sp. TAB-22, Lactococcussp. MH5-2, Lactonifactor longoviformis, Lautropia sp. TeTO, Leifsoniapsychrotolerans, Leptotrichia buccalis, Leptotrichia goodfellowii,Leptotrichia hongkongensis, Leptotrichia shahii, Leptotrichia sp. PTE15,Leptotrichia sp. oral taxon 225, Leptotrichia trevisanii, Leptotrichiawadei, Leuconostoc inhae, Leuconostoc lactis, Luteimonas aestuarii,Lysinibacillus sp. SJ2SN2, Lysinibacillus sphaericus, Malasseziarestricta, Marmoricola aurantiacus, Massilia sp. MAS-1, Massilia sp.hp37, Megamonas funiformis, Megasphaera genomosp. C1, Mesorhizobiumloti, Mesorhizobium sp. RE 62, Mesorhizobium sp. mat916,Methanobrevibacter smithii, Methylobacterium sp. AMS64, Methylobacteriumsp. CBMB45, Methylobacterium sp. PB142, Methylobacterium sp. PDD-23b-14,Methylobacterium sp. RK-2008-1, Microbacterium lacticum, Microbacteriumlacus, Microbacterium oxydans, Microbacterium sp. PcRB024,Microbacterium sp. absalar, Microbacterium yannicii, Micrococcus luteus,Micrococcus sp. M12-2-2, Micrococcus sp. WB18-01, Microlunatusaurantiacus, Mobiluncus curtisii, Mobiluncus mulieris, Modestobactermultiseptatus, Modestobacter sp. R-36506, Mogibacterium pumilum,Moraxella nonliquefaciens, Moraxella sp., Moraxella sp. 1967, Moraxellasp. 26, Moraxella sp. BBN2P-02d, Moraxella sp. WB19-16, Moryellaindoligenes, Murdochiella sp. S9 PR-10, Mycobacterium sp. 18 GUW,Mycobacterium sp. KNUC297, Negativicoccus sp. S5-A15, Negativicoccussuccinicivorans, Neisseria elongata, Neisseria macacae, Neisseriamucosa, Neisseria oralis, Neisseria sicca, Neisseria wadsworthii,Nocardioides daphniae, Nocardioides ginsengagri, Nocardioidesmesophilus, Nocardioides sp. BA32(2011), Novosphingobium panipatense,Novosphingobium sediminicola, Novosphingobium sp. iMX1, Nubsellazeaxanthinifaciens, Ochrobactrum sp. LC498, Ochrobactrum sp. SCTS14,Ochrobactrum tritici, Odoribacter splanchnicus, Oerskovia sp.Tibet-YD4604-5, Oribacterium sp. CM12, Oribacterium sp. oral taxon 078,Ornithinimicrobium sp. L5, Pantoea agglomerans, Parabacteroides merdae,Paraprevotella clara, Parasutterella excrementihominis, Parvimonasmicra, Pasteurella multocida, Paucibacter sp. 186, Paucibactertoxinivorans, Pedobacter sp. DL5, Pedomicrobium ferrugineum, Peptococcussp. S9 Pr-12, Peptococcus sp. canine oral taxon 344, Peptococcus sp.oral taxon 168, Peptoniphilus lacrimalis, Peptoniphilus sp. 1-14,Peptoniphilus sp. 2002-2300004, Peptoniphilus sp. 2002-38328,Peptoniphilus sp. 7-2, Peptoniphilus sp. S9 PR-13, Peptoniphilus sp.gpac018A, Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon 375,Peptostreptococcus anaerobius, Phascolarctobacterium faecium,Photobacterium sp. CAIM 866, Photobacterium sp. squidInt_04,Phyllobacterium sp. T50, Phyllobacterium trifolii, Planomicrobiumalkanoclasticum, Planomicrobium sp. TPD46, Polaromonas aquatica,Porphyromonas asaccharolytica, Porphyromonas bennonis, Porphyromonascangingivalis, Porphyromonas canoris, Porphyromonas catoniae,Porphyromonas crevioricanis, Porphyromonas endodontalis, Porphyromonassp. 2024b, Porphyromonas uenonis, Prevotella bivia, Prevotella buccalis,Prevotella intermedia, Prevotella maculosa, Prevotella nanceiensis,Prevotella nigrescens, Prevotella oris, Prevotella oulorum, Prevotellapallens, Prevotella timonensis, Propionibacterium sp. KPL1844,Propionibacterium sp. KPL2005, Propionibacterium sp. MSP09A,Propionibacterium sp. V07/12348, Pseudoclavibacter bifida,Pseudoclavibacter sp. Timone, Pseudoflavonifractor capillosus,Pseudomonas aeruginosa, Pseudomonas baetica, Pseudomonas brenneri,Pseudomonas citronellolis, Pseudomonas fluorescens, Pseudomonasmonteilii, Pseudomonas sp. CBMAI 1177, Pseudomonas sp. DQ-01,Pseudomonas sp. G1116, Pseudomonas sp. GmFRB023, Pseudomonas sp.KNUC378, Pseudomonas sp. KVS86, Pseudomonas sp. PDD-31b-4, Pseudomonassp. PKG89, Pseudomonas sp. PcFRB068, Pseudomonas sp. PcFRB100,Pseudomonas sp. StFRB280, Pseudomonas sp. a101-18-2, Pseudoxanthomonasjaponensis, Psychrobacter sanguinis, Psychrobacter sp. b110-1, Rahnellasp. FB303, Ralstonia pickettii, Ralstonia sp. A52, Ralstonia sp. CCUG46389, Ralstonia sp. S2.MAC.005, Rheinheimera sp. G3DM-27, Rhizobiumetli, Rhizobium skierniewicense, Rhizobium sp. 10II, Rhizobium sp. T45,Rhodococcus erythropolis, Rhodococcus sp. CO56, Rhodococcus sp. MARG10,Rhodococcus sp. PDD-31b-7, Rhodococcus sp. p52, Rhodopseudomonasboonkerdii, Roseburia inulinivorans, Roseburia sp. 11SE39, Roseomonascervicalis, Rothia dentocariosa, Rothia sp. CCUG 25688, Rothia sp.THG-N7, Salinibacterium sp. MDT1-9-1, Selenomonas genomosp. P5, Serratianematodiphila, Shewanella sp. 8113, Shinella sp. DR33, Simonsiellamuelleri, Skermanella aerolata, Solobacterium moorei, Sphingobacteriumsp. HTc4-a, Sphingobacterium sp. TB1, Sphingobium yanoikuyae,Sphingomonas aquatilis, Sphingomonas oligophenolica, Sphingomonas sp.24T, Sphingomonas sp. 540, Sphingomonas sp. CS81, Sphingomonas sp. KOPRI25661, Sphingomonas sp. PDD-26b-16, Sphingomonas sp. Z1-YC6841,Sphingomonas yunnanensis, Spirosoma rigui, Staphylococcus aureus,Staphylococcus epidermidis, Staphylococcus equorum, Staphylococcussimulans, Staphylococcus sp. 334802, Staphylococcus sp. 335602,Staphylococcus sp. C-D-MA2, Staphylococcus sp. C5I16, Staphylococcus sp.C9I2, Staphylococcus sp. WB18-16, Stenotrophomonas pavanii,Stenotrophomonas sp. C-S-TSA3, Stenotrophomonas sp. I_63-LFP1A9B1,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. PDD-33b-8,Stenotrophomonas sp. Z2-S2, Stomatobaculum longum, Streptococcusdysgalactiae, Streptococcus mutans, Streptococcus parasanguinis,Streptococcus pyogenes, Streptococcus sp. 11aTha1, Streptococcus sp.2011_Oral_MS_A3, Streptococcus sp. BS35a, Streptococcus sp. GMD6S,Streptococcus sp. S16-11, Streptococcus sp. canine oral taxon 279,Streptococcus sp. oral taxon G59, Streptococcus thermophilus,Subdoligranulum variabile, Sutterella sp. 252, Sutterella stercoricanis,Tannerella forsythia, Tannerella sp. oral taxon HOT-286,Terrisporobacter glycolicus, Tessaracoccus lapidicaptus, Turicellaotitidis, Varibaculum cambriense, Varibaculum sp. CCUG 45114,Varibaculum sp. CCUG 61255, Variovorax sp. IMER-B2-7, Variovorax sp.MM43Nov, Veillonella atypica, Veillonella parvula, Veillonella sp.2011_Oral_VSA_D3, Veillonella sp. AS16, Veillonella sp. CM60,Veillonella sp. MSA12, Veillonella sp. oral taxon 780, Xanthomonascampestris, Xanthomonas gardneri, Abiotrophia, Acetitomaculum,Achromobacter, Acidaminococcus, Acidiphilium, Acidovorax, Acinetobacter,Actinobacillus, Actinomadura, Actinomyces, Aerococcus, Aeromonas,Aerosphaera, Aggregatibacter, Agromyces, Akkermansia, Albidovulum,Alicyclobacillus, Alkanindiges, Alloprevotella, Altererythrobacter,Amaricoccus, Amnibacterium, Anaerobacillus, Anaerococcus,Anaerosporobacter, Anaerostipes, Anoxybacillus, Aquabacterium,Aquamicrobium, Aquaspirillum, Arthrobacter, Atopobium, Aurantimonas,Aureimonas, Azospira, Bacillus, Bacteroides, Barnesiella, Belnapia,Bergeyella, Bifidobacterium, Bilophila, Blastocatella, Blautia, Bosea,Brachybacterium, Bradyrhizobium, Brevibacterium, Brevundimonas,Brochothrix, Burkholderia, Butyrivibrio, Campylobacter, CandidatusAlysiosphaera, Candidatus Saccharimonas, Candidatus Stoquefichus,Candidatus Xiphinematobacter, Capnocytophaga, Catonella, Caulobacter,Cellulomonas, Cellulosimicrobium, Centipeda, Chitinophaga,Chryseobacterium, Chryseomicrobium, Chthoniobacter, Citrobacter,Cloacibacterium, Clostridium, Comamonas, Conchiformibius,Corynebacterium, Craurococcus, Cupriavidus, Curvibacter, Cutibacterium,Defluviimonas, Deinococcus, Delftia, Dermacoccus, Desulfovibrio,Devosia, Dietzia, Dolosigranulum, Duganella, Eggerthella,Eisenbergiella, Elizabethkingia, Enterobacter, Enterococcus,Enterorhabdus, Erysipelatoclostridium, Erythrobacter, Euzebya,Exiguobacterium, Facklamia, Faecalibacterium, Ferruginibacter,Filifactor, Finegoldia, Flavisolibacter, Flavobacterium, Fretibacterium,Friedmanniella, Frigoribacterium, Fusibacter, Fusicatenibacter,Fusobacterium, Gallicola, Gardnerella, Gemella, Geobacillus, Gordonia,Granulicatella, Granulicella, Haematobacter, Halomonas, Herbaspirillum,Hespellia, Holdemania, Hymenobacter, Iamia, Intestinibacter,Intestinimonas, Janibacter, Jatrophihabitans, Jeotgaalicus, Johnsonella,Kineosporia, Kingella, Klebsiella, Kluyvera, Knoellia, Kocuria,Kytococcus, Lachnoanaerobaculum, Lactobacillus, Lactococcus,Lactonifactor, Lautropia, Leifsonia, Leptotrichia, Leuconostoc,Luteimonas, Luteococcus, Lysinibacillus, Lysobacter, Malassezia,Marmoricola, Marvinbryantia, Massilia, Megamonas, Megasphaera,Mesorhizobium, Methanobrevibacter, Methylobacterium, Microbacterium,Micrococcus, Microvirga, Mobiluncus, Modestobacter, Mogibacterium,Moraxella, Murdochiella, Mycobacterium, Mycoplasma, Nakamurella,Negativicoccus, Neisseria, Nesterenkonia, Nitrososphaera, Nocardioides,Novosphingobium, Nubsella, Ochrobactrum, Odoribacter, Oerskovia,Oribacterium, Ornithinimicrobium, Oscillibacter, Oscillospira,Paenibacillus, Pantoea, Papillibacter, Paraprevotella, Parasutterella,Parvimonas, Pasteurella, Patulibacter, Pedobacter, Pedomicrobium,Peptoclostridium, Peptococcus, Peptoniphilus, Peptostreptococcus,Phascolarctobacterium, Phenylobacterium, Photobacterium,Phyllobacterium, Planococcus, Planomicrobium, Polaromonas,Porphyromonas, Prevotella, Propionibacterium, Propionimicrobium,Pseudoclavibacter, Pseudoflavonifractor, Pseudolabrys, Pseudomonas,Pseudonocardia, Pseudorhodoferax, Pseudoxanthomonas, Psychrobacter,Rahnella, Ralstonia, Rhizobium, Rhodobacter, Rhodococcus, Rhodoplanes,Rhodopseudomonas, Robinsoniella, Roseburia, Roseomonas,Rubellimicrobium, Rummeliibacillus, Saccharibacillus, Salinibacterium,Sarcina, Serinicoccus, Shewanella, Shuttleworthia, Simonsiella,Singulisphaera, Skermanella, Solirubrobacter, Solobacterium, Sorangium,Sphingobacterium, Sphingobium, Sphingomonas, Spirosoma, Staphylococcus,Stenotrophomonas, Stomatobaculum, Streptococcus, Streptomyces,Subdoligranulum, Sutterella, Tannerella, Terrisporobacter,Tessaracoccus, Thalassospira, Turicella, Vagococcus, Varibaculum,Veillonella, Virgibacillus, Wautersiella, Weissella, Zymomonas.
 26. Themethod of claim 12, wherein the first sleep-related condition comprisesa shift work condition, wherein determining user microbiome featurescomprises determining the user microbiome composition featurescomprising a set of composition features associated with a genital siteand with at least one of: Abiotrophia defectiva, Achromobacterxylosoxidans, Actinobaculum massiliense, Actinomyces europaeus,Actinomyces hongkongensis, Actinomyces neuii, Actinomyces odontolyticus,Actinomyces sp. 2002-2301122, Actinomyces sp. ICM58, Actinomyces sp.S4-C9, Actinomyces sp. S9 PR-21, Actinomyces turicensis, Actinotignumschaalii, Aerococcus christensenii, Aerococcus sanguinicola, Aerococcusurinae, Aerosphaera taetra, Akkermansia muciniphila, Alloscardoviaomnicolens, Anaerobacillus alkalidiazotrophicus, Anaerococcushydrogenalis, Anaerococcus lactolyticus, Anaerococcus murdochii,Anaerococcus octavius, Anaerococcus prevotii, Anaerococcus provencensis,Anaerococcus sp. 8404299, Anaerococcus sp. 8405254, Anaerococcus sp.9401487, Anaerococcus sp. PH9, Anaerococcus sp. S8 87-3, Anaerococcussp. S9 PR-16, Anaerococcus sp. S9 PR-5, Anaerococcus vaginalis,Anaeroglobus geminatus, Arcanobacterium haemolyticum, Arcanobacteriumsp. NML 06501, Atopobium deltae, Atopobium sp. F0209, Atopobium sp.MVA9, Atopobium sp. S3MV24, Atopobium sp. S4-A1a, Atopobium vaginae,Bacillus pseudofirmus, Bacillus sp. T41, Bacteroides caccae, Bacteroidesmassiliensis, Bacteroides sp. AR20, Bacteroides sp. D22, Bacteroidesthetaiotaomicron, Bacteroides vulgatus, Bifidobacterium bifidum,Bifidobacterium breve, Bifidobacterium choerinum, Bifidobacteriumgallicum, Bifidobacterium longum, Bifidobacterium sp. 120, Blautia luti,Bosea sp. BIWAKO-01, Bosea sp. R-46060, Bradyrhizobium sp. CCBAU 53380,Brevibacterium massiliense, Brevibacterium paucivorans, Brevibacteriumravenspurgense, Brevibacterium sp. 10-1, Bulleidia extructa,Campylobacter hominis, Campylobacter ureolyticus, Citrobacter sp. BW4,Collinsella aerofaciens, Corynebacterium canis, Corynebacteriumepidermidicanis, Corynebacterium frankenforstense, Corynebacteriumfreiburgense, Corynebacterium sp., Corynebacterium sp. 713182/2012,Corynebacterium sp. NML96-0085, Corynebacterium sp. jw37,Corynebacterium spheniscorum, Curvibacter gracilis, Cutibacterium acnes,Delftia lacustris, Delftia sp. BN-SKY3, Dialister micraerophilus,Dialister propionicifaciens, Dialister sp. E2_20, Dialister sp. S4-23,Dialister sp. S7MSR5, Dialister succinatiphilus, Enterococcus faecalis,Enterococcus sp. SI-4, Facklamia hominis, Facklamia languida, Facklamiasp. 1440-97, Facklamia sp. 164-92, Faecalibacterium prausnitzii,Faecalibacterium sp. canine oral taxon 147, Fastidiosipila sanguinis,Finegoldia magna, Finegoldia sp. S3MVA9, Finegoldia sp. S5-A7,Finegoldia sp. S8 F7, Finegoldia sp. S9 AA1-5, Fusicatenibactersaccharivorans, Fusobacterium sp. ACB2, Fusobacterium sp. CM21,Gardnerella sp. S3PF20, Gardnerella vaginalis, Gemella morbillorum,Globicatella sanguinis, Globicatella sulfidifaciens, Granulicatellaelegans, Haemophilus influenzae, Haemophilus parainfluenzae, Helcococcusseattlensis, Helcococcus sueciensis, Herbaspirillum huttiense,Herbaspirillum seropedicae, Jonquetella sp. BV3C4, Kluyvera georgiana,Lactobacillus acidophilus, Lactobacillus coleohominis, Lactobacilluscrispatus, Lactobacillus fornicalis, Lactobacillus gasseri,Lactobacillus iners, Lactobacillus jensenii, Lactobacillus johnsonii,Lactobacillus reuteri, Lactobacillus rhamnosus, Lactobacillus sp.7_1_47FAA, Lactobacillus sp. Akhmr01, Lactobacillus sp. B164,Lactobacillus sp. BL302, Lactobacillus sp. BL304, Lactobacillus sp.C30An8, Lactobacillus sp. CR-609S, Lactobacillus sp. MYMRS/TEN2,Lactobacillus taiwanensis, Lactobacillus vaginalis, Leptotrichiahongkongensis, Lysinibacillus sphaericus, Megasphaera massiliensis,Megasphaera sp. BV3C16-1, Megasphaera sp. UPII 135-E, Megasphaera sp.UPII 199-6, Mesorhizobium loti, Mesorhizobium sp. mat916,Methylobacterium organophilum, Methylobacterium sp. CBMB45, Mobiluncuscurtisii, Mobiluncus mulieris, Murdochiella asaccharolytica,Murdochiella sp. S9 PR-10, Mycoplasma hominis, Mycoplasmaspermatophilum, Negativicoccus sp. S5-A15, Neisseria macacae,Ochrobactrum sp. SCTS14, Oligella urethralis, Pelomonas aquatica,Peptococcus sp. S9 Pr-12, Peptoniphilus coxii, Peptoniphilus duerdenii,Peptoniphilus lacrimalis, Peptoniphilus sp. 1-14, Peptoniphilus sp.2002-2300004, Peptoniphilus sp. 2002-38328, Peptoniphilus sp. 7-2,Peptoniphilus sp. BV3AC2, Peptoniphilus sp. DNF00192, Peptoniphilus sp.JCM 8143, Peptoniphilus sp. S4-A10, Peptoniphilus sp. S9 PR-13,Peptoniphilus sp. gpac018A, Peptoniphilus sp. gpac148, Peptoniphilus sp.oral taxon 375, Peptoniphilus sp. oral taxon 836, Peptostreptococcusanaerobius, Phascolarctobacterium succinatutens, Porphyromonas bennonis,Porphyromonas somerae, Porphyromonas sp. 20024b, Porphyromonas sp. S886-12, Porphyromonas uenonis, Prevotella amnii, Prevotella bivia,Prevotella buccalis, Prevotella disiens, Prevotella sp. BV3C7,Prevotella sp. S4-10, Prevotella timonensis, Propionibacterium sp.KPL2005, Propionibacterium sp. MSP09A, Propionimicrobium lymphophilum,Pseudoclavibacter sp. Timone, Pseudoglutamicibacter albus,Pseudoglutamicibacter cumminsii, Ralstonia pickettii, Ralstonia sp. A52,Rhizobium sp. sc-w, Rhodopseudomonas boonkerdii, Sneathia sanguinegens,Sphingobium sp. LC341, Staphylococcus sp. 334802, Staphylococcus sp.C912, Staphylococcus sp. FXY54, Stenotrophomonas sp. KITS-1,Stenotrophomonas sp. N017, Streptococcus agalactiae, Streptococcusanginosus, Streptococcus dysgalactiae, Streptococcus gordonii,Streptococcus parasanguinis, Streptococcus pasteurianus, Streptococcussp. 11aTha1, Streptococcus sp. 2011_Oral_MS_A3, Streptococcus sp. BS35a,Streptococcus thermophilus, Sutterella stercoricanis, Tessaracoccus sp.SL014B-79A, Trueperella bernardiae, Ureaplasma urealyticum, Varibaculumcambriense, Varibaculum sp. CCUG 45114, Varibaculum sp. CCUG 61255,Veillonella atypica, Veillonella montpellierensis, Veillonella parvula,Veillonella seminalis, Veillonella sp. 2011_Oral_VSA_D3, Abiotrophia,Achromobacter, Actinobaculum, Actinomyces, Aerococcus, Aerosphaera,Akkermansia, Alloscardovia, Anaerobacillus, Anaerococcus, Anaeroglobus,Arcanobacterium, Arthrobacter, Atopobium, Bacillus, Bacteroides,Bifidobacterium, Blautia, Bosea, Brachybacterium, Brevibacterium,Bulleidia, Campylobacter, Citrobacter, Collinsella, Corynebacterium,Curvibacter, Delftia, Dermabacter, Dialister, Enterococcus, Facklamia,Faecalibacterium, Fastidiosipila, Finegoldia, Fusicatenibacter,Fusobacterium, Gallicola, Gardnerella, Gemella, Globicatella,Granulicatella, Haemophilus, Helcococcus, Herbaspirillum, Howardella,Intestinibacter, Jonquetella, Kluyvera, Lachnospira, Lactobacillus,Leptotrichia, Lysinibacillus, Mesorhizobium, Methylobacterium,Mobiluncus, Mogibacterium, Moryella, Murdochiella, Mycoplasma,Negativicoccus, Ochrobactrum, Oligella, Parvibacter, Parvimonas,Pelomonas, Peptococcus, Peptoniphilus, Peptostreptococcus,Porphyromonas, Prevotella, Propionibacterium, Propionimicrobium,Pseudoclavibacter, Pseudomonas, Rhizobium, Rhodopseudomonas, Roseburia,Rothia, Sarcina, Senegalimassilia, Shuttleworthia, Sneathia,Sphingobium, Sphingomonas, Staphylococcus, Stenotrophomonas,Streptococcus, Subdoligranulum, Sutterella, Tessaracoccus, Trueperella,Ureaplasma, Varibaculum.
 27. The method of claim 12, wherein the firstsleep-related condition comprises a shift work condition, whereindetermining user microbiome features comprises determining the usermicrobiome composition features comprising a set of composition featuresassociated with a gut site and with at least one of: Abiotrophiadefectiva, Achromobacter xylosoxidans, Acidaminococcus fermentans,Acidaminococcus intestini, Acidaminococcus sp. BV3L6, Acidaminococcussp. D21, Acidaminococcus sp. HPA0509, Acinetobacter sp. 423D,Acinetobacter sp. 81A1, Actinobacillus porcinus, Actinomyceshongkongensis, Actinomyces neuii, Actinomyces odontolyticus, Actinomycesoris, Actinomyces radingae, Actinomyces sp. 2002-2301122, Actinomycessp. ICM47, Actinomyces sp. ICM54, Actinomyces sp. ICM58, Actinomyces sp.S4-C9, Actinomyces sp. S6-Spd3, Actinomyces sp. S9 PR-21, Actinomycessp. oral strain Hal-1065, Actinomyces turicensis, Actinomyces viscosus,Actinotignum schaalii, Adlercreutzia equolifaciens, Aerococcuschristensenii, Aeromonas sp. B11, Aerosphaera taetra, Aggregatibacteraphrophilus, Aggregatibacter segnis, Akkermansia muciniphila, Alistipesfinegoldii, Alistipes indistinctus, Alistipes inops, Alistipesmassiliensis, Alistipes onderdonkii, Alistipes putredinis, Alistipesshahii, Alistipes sp. EBA6-25cl2, Alistipes sp. HGB5, Alistipes sp.NML05A004, Alistipes sp. RMA 9912, Allisonella histaminiformans,Alloscardovia omnicolens, Anaerococcus hydrogenalis, Anaerococcuslactolyticus, Anaerococcus murdochii, Anaerococcus octavius,Anaerococcus prevotii, Anaerococcus provencensis, Anaerococcus sp.8404299, Anaerococcus sp. 8405254, Anaerococcus sp. PH9, Anaerococcussp. S8 87-3, Anaerococcus sp. S8 F2, Anaerococcus sp. S9 PR-5,Anaerococcus sp. gpac137, Anaerococcus tetradius, Anaerococcusvaginalis, Anaerofustis stercorihominis, Anaeroglobus geminatus,Anaerosinus glycerini, Anaerosporobacter mobilis, Anaerostipesbutyraticus, Anaerostipes caccae, Anaerostipes hadrus, Anaerostipesrhamnosivorans, Anaerostipes sp. 3_2_56FAA, Anaerostipes sp. 494a,Anaerostipes sp. 5_1_63FAA, Anaerostipes sp. 992a, Anaerotruncuscolihominis, Anaerotruncus sp. NML 070203, Anaerovibrio sp. 656,Anaerovibrio sp. 765, Arcanobacterium haemolyticum, Arcanobacterium sp.NML 065001, Arthrobacter sp., Asaccharospora irregularis, Atopobiumdeltae, Atopobium minutum, Atopobium sp. F02009, Atopobium sp. ICM57,Atopobium sp. S3MV24, Atopobium sp. S3MV26, Atopobium sp. S3PFAA1-4,Atopobium vaginae, Bacillus sp. HC15, Bacteroides acidifaciens,Bacteroides caccae, Bacteroides caecigallinarum, Bacteroides clarus,Bacteroides dorei, Bacteroides eggerthii, Bacteroides faecis,Bacteroides finegoldii, Bacteroides fluxus, Bacteroides fragilis,Bacteroides intestinalis, Bacteroides massiliensis, Bacteroides nordii,Bacteroides oleiciplenus, Bacteroides ovatus, Bacteroides plebeius,Bacteroides rodentium, Bacteroides salyersiae, Bacteroides sp.,Bacteroides sp. 14(A), Bacteroides sp. 2_2_4, Bacteroides sp. 31SF15,Bacteroides sp. 35AE37, Bacteroides sp. 3_1_23, Bacteroides sp. 3_1_40A,Bacteroides sp. 4072, Bacteroides sp. AR20, Bacteroides sp. AR29,Bacteroides sp. CB57, Bacteroides sp. D20, Bacteroides sp. D22,Bacteroides sp. DJF_B097, Bacteroides sp. EBA5-17, Bacteroides sp.HPS0048, Bacteroides sp. J1511, Bacteroides sp. SLC1-38, Bacteroides sp.Smarlab 3301643, Bacteroides sp. TP-5, Bacteroides sp. WH302,Bacteroides sp. XB12B, Bacteroides sp. XB44A, Bacteroides sp. dnLKV9,Bacteroides stercorirosoris, Bacteroides stercoris, Bacteroidesthetaiotaomicron, Bacteroides uniformis, Bacteroides vulgatus,Bacteroides xylanisolvens, Barnesiella intestinihominis, Barnesiellaviscericola, Bergeyella sp. AF14, Bifidobacterium adolescentis,Bifidobacterium animalis, Bifidobacterium biavatii, Bifidobacteriumbifidum, Bifidobacterium breve, Bifidobacterium catenulatum,Bifidobacterium choerinum, Bifidobacterium dentium, Bifidobacteriumgallicum, Bifidobacterium kashiwanohense, Bifidobacterium longum,Bifidobacterium merycicum, Bifidobacterium pseudocatenulatum,Bifidobacterium pullorum, Bifidobacterium scardovii, Bifidobacteriumsp., Bifidobacterium sp. 120, Bifidobacterium sp. 138, Bifidobacteriumsp. MSX5B, Bifidobacterium stercoris, Bifidobacterium thermacidophilum,Bifidobacterium tsurumiense, Bilophila sp. 4_1_30, Bilophilawadsworthia, Blautia coccoides, Blautia faecis, Blautia glucerasea,Blautia hansenii, Blautia hydrogenotrophica, Blautia luti, Blautiaproducta, Blautia schinkii, Blautia sp. Ser5, Blautia sp. Ser8, Blautiasp. YHC-4, Blautia stercoris, Blautia wexlerae, Brachybacterium sp.NIO-27, Brachybacterium sp. S26, Brachyspira aalborgi, Brevibacteriummassiliense, Brevibacterium paucivorans, Brevibacterium ravenspurgense,Butyricicoccus pullicaecorum, Butyricimonas faecihominis, Butyricimonasparavirosa, Butyricimonas sp. 180-3, Butyricimonas sp. 214-4,Butyricimonas sp. GD2, Butyricimonas synergistica, Butyricimonas virosa,Butyrivibrio crossotus, Campylobacter faecalis, Campylobacter gracilis,Campylobacter hominis, Campylobacter jejuni, Campylobacter sp.0402694-C0078, Campylobacter ureolyticus, Carnobacterium maltaromaticum,Catabacter hongkongensis, Catenibacterium mitsuokai, Cellulosilyticumlentocellum, Cellulosilyticum ruminicola, Citrobacter amalonaticus,Citrobacter sp. BW4, Citrobacter sp. HD4.9, Cloacibacillus evryensis,Cloacibacterium rupense, Clostridioides difficile, Clostridiumventriculi, Collinsella aerofaciens, Collinsella intestinalis,Collinsella tanakaei, Comamonas jiangduensis, Comamonas sp. j41,Coprobacillus sp. D6, Coprobacter fastidiosus, Coprobacter secundus,Corynebacterium argentoratense, Corynebacterium atypicum,Corynebacterium canis, Corynebacterium diphtheriae, Corynebacteriumepidermidicanis, Corynebacterium frankenforstense, Corynebacteriumfreiburgense, Corynebacterium glucuronolyticum, Corynebacteriummastitidis, Corynebacterium sp., Corynebacterium sp. 2300500,Corynebacterium sp. 713182/2012, Corynebacterium sp. NML 97-0186,Corynebacterium sp. jw37, Corynebacterium ulcerans, Cronobacterdublinensis, Cronobacter sakazakii, Cronobacter turicensis, Cruoricaptorignavus, Cutibacterium acnes, Cutibacterium avidum, Delftia lacustris,Delftia sp. BN-SKY3, Dermabacter sp. HFH0086, Desulfovibrio piger,Desulfovibrio sp., Desulfovibrio sp. 3_1_syn3, Desulfovibrio sp.UNSW3caefatS, Dialister invisus, Dialister micraerophilus, Dialisterpneumosintes, Dialister propionicifaciens, Dialister sp. E2_20,Dialister sp. S4-23, Dialister sp. S7MSR5, Dialister succinatiphilus,Dielma fastidiosa, Dolosigranulum pigrum, Dorea formicigenerans, Dorealongicatena, Dysgonomonas capnocytophagoides, Eggerthella lenta,Eggerthella sinensis, Eggerthella sp. HGA1, Eisenbergiella tayi,Enterobacter asburiae, Enterobacter sp. BS2-1, Enterobacter sp. UDC345,Enterococcus durans, Enterococcus faecalis, Enterococcus hirae,Enterococcus pallens, Enterococcus sp. C6I11, Enterococcus sp. SI-4,Enterorhabdus caecimuris, Eremococcus coleocola, Erysipelatoclostridiumramosum, Eubacterium callanderi, Eubacterium limosum, Eubacterium sp.SA11, Facklamia hominis, Facklamia sp. 1440-97, Facklamia sp. 164-92,Faecalibacterium prausnitzii, Faecalibacterium sp. canine oral taxon147, Fastidiosipila sanguinis, Finegoldia magna, Finegoldia sp. BV3C29,Finegoldia sp. S5-A7, Finegoldia sp. S9 AA1-5, Flavonifractor plautii,Fusicatenibacter saccharivorans, Fusobacterium equinum, Fusobacteriummortiferum, Fusobacterium necrogenes, Fusobacterium nucleatum,Fusobacterium perfoetens, Fusobacterium periodonticum, Fusobacterium sp.AS2, Fusobacterium sp. CM21, Fusobacterium sp. DJF_B100, Fusobacteriumsp. OBRC1, Fusobacterium ulcerans, Fusobacterium varium, Gardnerella sp.S3PF20, Gardnerella vaginalis, Gemella asaccharolytica, Gemella sp.933-88, Globicatella sulfidifaciens, Gordonibacter pamelaeae,Granulicatella adiacens, Haemophilus influenzae, Haemophilusparainfluenzae, Hafnia alvei, Helcococcus seattlensis, Helcococcussueciensis, Herbaspirillum seropedicae, Herbaspirillum sp. YR522,Holdemania filiformis, Howardella ureilytica, Intestinimonasbutyriciproducens, Jonquetella anthropi, Jonquetella sp. BV3C4,Klebsiella oxytoca, Klebsiella sp. B12, Klebsiella sp. SOR89, Kluyverageorgiana, Lachnoanaerobaculum orale, Lachnoanaerobaculum sp. MSX33,Lachnospira pectinoschiza, Lactobacillus acidophilus, Lactobacillusalgidus, Lactobacillus animalis, Lactobacillus coleohominis,Lactobacillus delbrueckii, Lactobacillus fornicalis, Lactobacillusgasseri, Lactobacillus helveticus, Lactobacillus iners, Lactobacillusjensenii, Lactobacillus johnsonii, Lactobacillus kefiri, Lactobacillusmucosae, Lactobacillus reuteri, Lactobacillus rhamnosus, Lactobacillusruminis, Lactobacillus salivarius, Lactobacillus sp. 7_1_47FAA,Lactobacillus sp. Akhmr01, Lactobacillus sp. BL302, Lactobacillus sp.C30An8, Lactobacillus sp. C412, Lactobacillus sp. CR-609S, Lactobacillussp. NRCT-KU 1, Lactobacillus sp. TAB-22, Lactobacillus sp. TAB-26,Lactobacillus vaginalis, Lactococcus lactis, Lactococcus sp. MH5-2,Lactococcus sp. STM1, Lactonifactor longoviformis, Lautropia sp. TeTO,Leptotrichia genomosp. C1, Leptotrichia sp. PG10, Leuconostoc carnosum,Leuconostoc lactis, Leuconostoc sp. C714, Marvinbryantia formatexigens,Megamonas funiformis, Megasphaera elsdenii, Megasphaera genomosp. C1,Megasphaera massiliensis, Megasphaera micronuciformis, Megasphaera sp.BS-4, Megasphaera sp. BV3C16-1, Megasphaera sp. DNF00912, Megasphaerasp. S6-MB2, Megasphaera sp. TrE9262, Megasphaera sp. UPII 199-6,Methanobrevibacter smithii, Methanobrevibacter sp., Methanosphaerastadtmanae, Mitsuokella jalaludinii, Mitsuokella multacida, Mitsuokellasp. DJF_RR21, Mitsuokella sp. TM-10, Mobiluncus curtisii, Mobiluncusmulieris, Mogibacterium timidum, Moraxella catarrhalis, Morganellamorganii, Moryella indoligenes, Murdochiella asaccharolytica,Murdochiella sp. S9 PR-10, Mycoplasma hominis, Negativicoccus sp.S5-A15, Neisseria flavescens, Neisseria macacae, Neisseria mucosa,Nosocomiicoccus ampullae, Ochrobactrum sp. SCTS14, Odoribacter laneus,Odoribacter splanchnicus, Oligella urethralis, Olsenella sp. S9 HS-6,Oribacterium sp. OBRC12, Oscillibacter valericigenes, Oscillospiraguilliermondii, Pantoea gaviniae, Parabacteroides distasonis,Parabacteroides faecis, Parabacteroides goldsteinii, Parabacteroidesgordonii, Parabacteroides johnsonii, Parabacteroides merdae,Parabacteroides sp. 20_3, Parabacteroides sp. D25, Parabacteroides sp.dnLKV8, Paraprevotella clara, Paraprevotella xylaniphila,Parasporobacterium paucivorans, Parasutterella excrementihominis,Parvimonas micra, Paucibacter sp. 186, Pediococcus sp. MFC1, Pelistegaindica, Pelomonas aquatica, Peptococcus niger, Peptococcus sp. S9 Pr-12,Peptococcus sp. canine oral taxon 334, Peptoniphilus coxii,Peptoniphilus duerdenii, Peptoniphilus koenoeneniae, Peptoniphiluslacrimalis, Peptoniphilus sp. 1-14, Peptoniphilus sp. 2002-2300004,Peptoniphilus sp. 2002-38328, Peptoniphilus sp. 7-2, Peptoniphilus sp.BV3AC2, Peptoniphilus sp. DNF00840, Peptoniphilus sp. JCM 8143,Peptoniphilus sp. S9 PR-13, Peptoniphilus sp. gpac018A, Peptoniphilussp. gpac148, Peptoniphilus sp. oral taxon 375, Peptoniphilus sp. oraltaxon 836, Peptostreptococcus anaerobius, Peptostreptococcus stomatis,Phascolarctobacterium faecium, Phascolarctobacterium sp. 377,Phascolarctobacterium sp. canine oral taxon 149, Phascolarctobacteriumsuccinatutens, Porphyromonas asaccharolytica, Porphyromonas bennonis,Porphyromonas catoniae, Porphyromonas endodontalis, Porphyromonas sp.20024b, Porphyromonas sp. S8 86-12, Porphyromonas uenonis, Prevotellaamnii, Prevotella buccalis, Prevotella disiens, Prevotella intermedia,Prevotella nanceiensis, Prevotella nigrescens, Prevotella oris,Prevotella pallens, Prevotella sp. BV3C7, Prevotella sp. S4-10,Prevotella sp. WAL 2039G, Prevotella timonensis, Propionibacteriumfreudenreichii, Propionibacterium sp. KPL1844, Propionibacterium sp.MSP09A, Propionimicrobium lymphophilum, Proteus mirabilis, Proteuspenneri, Proteus vulgaris, Pseudobutyrivibrio ruminis, Pseudoclavibacterbifida, Pseudoclavibacter sp. Timone, Pseudoflavonifractor capillosus,Pseudoglutamicibacter albus, Pseudoglutamicibacter cumminsii,Pseudomonas monteilii, Pseudomonas sp. CBMAI 1177, Pseudomonas sp. KB23,Pseudomonas sp. a101-18-2, Pseudomonas sp. a111-5, Pyramidobacterpiscolens, Rahnella sp. BSP15, Rahnella sp. BSP18, Rahnella sp. FB303,Ralstonia sp. S2.MAC.005, Raoultella ornithinolytica, Rhizobium sp. T45,Rikenella microfusus, Robinsoniella peoriensis, Robinsoniella sp.KNHs210, Rodentibacter pneumotropicus, Romboutsia lituseburensis,Roseburia faecis, Roseburia hominis, Roseburia intestinalis, Roseburiainulinivorans, Roseburia sp. 11SE39, Roseburia sp. 499, Rothiadentocariosa, Rothia mucilaginosa, Rothia sp. RV13, Rothia sp. THG-N7,Scardovia wiggsiae, Selenomonas sp. Ycb08, Slackia faecicanis, Slackiapiriformis, Slackia sp. NATTS, Sneathia sanguinegens, Solobacteriummoorei, Solobacterium sp. S4-A19, Sporobacter termitidis, Sporomusasphaeroides, Staphylococcus simulans, Staphylococcus sp. 334802,Stenotrophomonas sp. C-S-TSA3, Stomatobaculum longum, Streptococcusdentirousetti, Streptococcus equinus, Streptococcus gordonii,Streptococcus parasanguinis, Streptococcus peroris, Streptococcus sp.11aTha1, Streptococcus sp. 2011_Ileo_MS_A10, Streptococcus sp.2011_Oral_MS_A3, Streptococcus sp. 2011_Oral_MS_D12, Streptococcus sp.BS35a, Streptococcus sp. GMD6S, Streptococcus sp. S16-11, Streptococcussp. TM013, Streptococcus sp. oral taxon G59, Streptococcus thermophilus,Subdoligranulum variabile, Sutterella parvirubra, Sutterella sp. 252,Sutterella sp. YIT 12072, Sutterella stercoricanis, Sutterellawadsworthensis, Terrisporobacter glycolicus, Terrisporobacterpetrolearius, Tessaracoccus lapidicaptus, Tessaracoccus sp. SL014B-79A,Trueperella bernardiae, Turicibacter sanguinis, Turicibacter sp. LA62,Ureaplasma urealyticum, Varibaculum cambriense, Varibaculum sp. CCUG45114, Veillonella atypica, Veillonella dispar, Veillonellamontpellierensis, Veillonella parvula, Veillonella ratti, Veillonellarogosae, Veillonella seminalis, Veillonella sp. 2011_Oral_VSA_B12,Veillonella sp. 2011_Oral_VSA_C9, Veillonella sp. 2011_Oral_VSA_D12,Veillonella sp. 2011_Oral_VSA_D3, Veillonella sp. ADV 269.01,Veillonella sp. AS16, Veillonella sp. MSA12, Veillonella sp. oral taxon780, Victivallis vadensis, Weeksella virosa, Weissella cibaria,Weissella confusa, Weissella hellenica, Weissella sp. H1a, [Collinsella]massiliensis, Abiotrophia, Acetitomaculum, Acetivibrio, Acholeplasma,Achromobacter, Acidaminococcus, Actinobacillus, Actinobaculum,Actinomyces, Adlercreutzia, Aerococcus, Aeromonas, Aerosphaera,Aggregatibacter, Akkermansia, Alistipes, Allisonella, Alloprevotella,Alloscardovia, Anaerobacillus, Anaerobacter, Anaerococcus, Anaerofilum,Anaerofustis, Anaeroglobus, Anaeroplasma, Anaerosinus,Anaerosporobacter, Anaerostipes, Anaerotruncus, Anaerovibrio,Anaerovorax, Arcanobacterium, Arthrobacter, Asaccharobacter,Asaccharospora, Asteroleplasma, Atopobium, Azospira, Bacillus,Bacteroides, Barnesiella, Bergeyella, Bifidobacterium, Bilophila,Blautia, Brachybacterium, Brachyspira, Bradyrhizobium, Brevibacterium,Butyricicoccus, Butyricimonas, Butyrivibrio, Caldicoprobacter,Campylobacter, Candidatus Methanomethylophilus, Candidatus Soleaferrea,Candidatus Stoquefichus, Capnocytophaga, Carnobacterium, Catabacter,Catenibacterium, Cellulosilyticum, Citrobacter, Cloacibacillus,Cloacibacterium, Clostridium, Collinsella, Comamonas, Coprobacillus,Coprobacter, Corynebacterium, Cronobacter, Cruoricaptor, Cupriavidus,Deinococcus, Delftia, Dermabacter, Desulfovibrio, Dialister, Dielma,Dolosigranulum, Dorea, Dysgonomonas, Eggerthella, Eisenbergiella,Enterococcus, Enterorhabdus, Eremococcus, Erysipelatoclostridium,Eubacterium, Facklamia, Faecalibacterium, Fastidiosipila, Fibrobacter,Finegoldia, Flavobacterium, Flavonifractor, Fretibacterium,Fusicatenibacter, Fusobacterium, Gallicola, Gardnerella, Gelria,Gemella, Gordonibacter, Granulicatella, Haemophilus, Hafnia,Helcococcus, Herbaspirillum, Hespellia, Holdemania, Howardella,Hydrogenoanaerobacterium, Intestinibacter, Intestinimonas, Klebsiella,Kluyvera, Lachnoanaerobaculum, Lachnospira, Lactobacillus, Lactococcus,Lactonifactor, Lautropia, Leptotrichia, Leuconostoc, Marvinbryantia,Megamonas, Megasphaera, Methanobrevibacter, Methanomassiliicoccus,Methanosphaera, Mitsuokella, Mobiluncus, Mogibacterium, Moraxella,Morganella, Moryella, Murdochiella, Mycobacterium, Mycoplasma,Negativicoccus, Neisseria, Nosocomiicoccus, Novosphingobium,Ochrobactrum, Odoribacter, Oligella, Olsenella, Oribacterium,Oscillibacter, Oscillospira, Pantoea, Papillibacter, Parabacteroides,Paraprevotella, Parasporobacterium, Parasutterella, Parvimonas,Pasteurella, Paucibacter, Pelistega, Pelomonas, Peptoclostridium,Peptococcus, Peptoniphilus, Peptostreptococcus, Phascolarctobacterium,Phyllobacterium, Porphyromonas, Prevotella, Propionibacterium,Propionimicrobium, Proteiniclasticum, Proteiniphilum, Proteus,Pseudobutyrivibrio, Pseudoclavibacter, Pseudoflavonifractor,Pseudomonas, Rahnella Raoultella, Rhodobacter, Rhodococcus, Rikenella,Robinsoniella, Romboutsia, Roseburia, Rothia, Sarcina, Scardovia,Sedimentibacter, Selenomonas, Senegalimassilia, Shuttleworthia, Slackia,Sneathia, Solobacterium, Sporobacter, Sporomusa, Staphylococcus,Stomatobaculum, Streptococcus, Subdoligranulum, Succiniclasticum,Succinivibrio, Sutterella, Synergistes, Terrisporobacter, Tessaracoccus,Thalassospira, Trueperella, Turicibacter, Ureaplasma, Varibaculum,Veillonella, Victivallis, Weeksella, Weissella.
 28. The method of claim12, wherein the first sleep-related condition comprises a shift workcondition, wherein determining user microbiome features comprisesdetermining the user microbiome composition features comprising a set ofcomposition features associated with a mouth site and with at least oneof: Abiotrophia defectiva, Actinobacillus porcinus, Actinomycesdentalis, Actinomyces georgiae, Actinomyces gerencseriae, Actinomycesgraevenitzii, Actinomyces massiliensis, Actinomyces meyeri, Actinomycesnaeslundii, Actinomyces odontolyticus, Actinomyces oris, Actinomycessp., Actinomyces sp. ICM34, Actinomyces sp. ICM41, Actinomyces sp.ICM47, Actinomyces sp. ICM54, Actinomyces sp. ICM58, Actinomyces sp.S6-Spd3, Actinomyces sp. ZSY-1, Actinomyces sp. oral strain Hal-1065,Actinomyces sp. oral taxon 170, Actinomyces sp. oral taxon 175,Actinomyces sp. oral taxon 178, Actinomyces sp. oral taxon 448,Actinomyces sp. ph3, Actinomyces viscosus, Aerococcus christensenii,Aggregatibacter aphrophilus, Aggregatibacter segnis, Akkermansiamuciniphila, Alistipes finegoldii, Alistipes inops, Alistipesputredinis, Alistipes sp. EBA6-25cl2, Alistipes sp. HGB5, Alistipes sp.NML05A004, Alistipes sp. RMA 9912, Alloprevotella rava, Alloprevotellatannerae, Alloscardovia omnicolens, Anaeroglobus geminatus, Anaerostipeshadrus, Anaerostipes sp. 5_1_63FAA, Anaerotruncus sp. NML 070203,Asaccharospora irregularis, Atopobium parvulum, Atopobium rimae,Atopobium sp. DMCT15023, Atopobium sp. ICM57, Bacteroides acidifaciens,Bacteroides caccae, Bacteroides clarus, Bacteroides coprocola,Bacteroides eggerthii, Bacteroides fragilis, Bacteroides intestinalis,Bacteroides massiliensis, Bacteroides nordii, Bacteroides plebeius,Bacteroides sp. 3_1_40A, Bacteroides sp. AR20, Bacteroides sp. AR29,Bacteroides sp. D22, Bacteroides sp. DJF_B097, Bacteroides sp. EBA5-17,Bacteroides sp. J1511, Bacteroides sp. SLC1-38, Bacteroides sp. XB12B,Bacteroides sp. XB44A, Bacteroides stercorirosoris, Bacteroidesstercoris, Bacteroides thetaiotaomicron, Bacteroides uniformis,Bacteroides vulgatus, Barnesiella intestinihominis, Bergerielladenitrificans, Bifidobacterium adolescentis, Bifidobacteriumkashiwanohense, Bifidobacterium longum, Bifidobacterium sp. MSX5B,Bilophila wadsworthia, Blautia faecis, Blautia luti, Blautia sp. YHC-4,Blautia stercoris, Blautia wexlerae, Bradyrhizobium sp. 68A4SAPT,Brevundimonas sp. FXJ8.080, Butyricimonas faecihominis, Butyricimonasparavirosa, Butyricimonas virosa, Butyrivibrio crossotus, Campylobacterconcisus, Campylobacter gracilis, Campylobacter showae, Campylobactersp. 10_1_50, Campylobacter sp. FOBRC15, Campylobacter ureolyticus,Capnocytophaga gingivalis, Capnocytophaga granulosa, Capnocytophagahaemolytica, Capnocytophaga ochracea, Capnocytophaga sp. AHN9576,Capnocytophaga sp. AHN9687, Capnocytophaga sp. AHN9756, Capnocytophagasp. CM59, Capnocytophaga sp. HS5_2W_I24, Capnocytophaga sp. oral taxon335, Capnocytophaga sp. oral taxon 336, Capnocytophaga sp. oral taxon338, Capnocytophaga sputigena, Cardiobacterium hominis, Catenibacteriummitsuokai, Catonella morbi, Centipeda periodontii, Clostridioidesdifficile, Collinsella aerofaciens, Coprobacter fastidiosus,Corynebacterium durum, Corynebacterium glucuronolyticum, Corynebacteriummatruchotii, Corynebacterium sp., Corynebacterium spheniscorum,Corynebacterium ulcerans, Cryptobacterium curtum, Cutibacterium acnes,Delftia lacustris, Delftia sp. BN-SKY3, Desulfobulbus sp. oral taxon041, Desulfovibrio sp. 3_1_syn3, Dialister invisus, Dialistermicraerophilus, Dialister pneumosintes, Dolosigranulum pigrum, Doreaformicigenerans, Dorea longicatena, Eggerthella lenta, Eggerthiacatenaformis, Eikenella corrodens, Eisenbergiella tayi,Erysipelatoclostridium ramosum, Faecalibacterium prausnitzii,Faecalibacterium sp. canine oral taxon 147, Filifactor alocis,Finegoldia sp. S8 F7, Finegoldia sp. S9 AA1-5, Flavonifractor plautii,Fretibacterium fastidiosum, Fusicatenibacter saccharivorans,Fusobacterium nucleatum, Fusobacterium periodonticum, Fusobacterium sp.AS2, Fusobacterium sp. CM21, Fusobacterium sp. CM22, Fusobacterium sp.OBRC1, Gardnerella vaginalis, Gemella morbillorum, Gemella sanguinis,Gemella sp. 933-88, Gordonibacter pamelaeae, Granulicatella adiacens,Granulicatella elegans, Haemophilus influenzae, Haemophilusparainfluenzae, Herbaspirillum seropedicae, Kingella oralis, Kluyverageorgiana, Lachnoanaerobaculum orale, Lachnoanaerobaculum saburreum,Lachnoanaerobaculum sp. MSX33, Lachnoanaerobaculum sp. OBRC5-5,Lachnoanaerobaculum umeaense, Lachnospira pectinoschiza, Lactobacilluscrispatus, Lactobacillus paracasei, Lactobacillus salivarius,Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. Akhmr01, Lactobacillussp. BL302, Lactobacillus sp. NRCT-KU 1, Lactobacillus vaginalis,Lautropia sp. TeTO, Leptotrichia buccalis, Leptotrichia genomosp. C1,Leptotrichia goodfellowii, Leptotrichia hofstadii, Leptotrichiahongkongensis, Leptotrichia shahii, Leptotrichia sp. PG10, Leptotrichiasp. PTE15, Leptotrichia sp. oral taxon 223, Leptotrichia sp. oral taxon225, Leptotrichia trevisanii, Leptotrichia wadei, Lysinibacillus sp.SJ2SN2, Mannheimia granulomatis, Megamonas funiformis, Megasphaeragenomosp. C1, Megasphaera massiliensis, Megasphaera micronuciformis,Megasphaera sp. UPII 199-6, Methanobrevibacter smithii, Methanosphaerastadtmanae, Methylobacterium longum, Methylobacterium sp. RK-2008-1,Mogibacterium pumilum, Mogibacterium sp. CM50, Mogibacterium sp. CM96,Mogibacterium timidum, Moraxella sp. WB19-16, Mycoplasma falconis,Mycoplasma salivarium, Mycoplasma subdolum, Neisseria bacilliformis,Neisseria elongata, Neisseria flavescens, Neisseria macacae, Neisseriamucosa, Neisseria oralis, Neisseria shayeganii, Neisseria sicca,Neisseria skkuensis, Neisseria sp. 104(2012), Odoribacter laneus,Odoribacter splanchnicus, Olsenella sp. F000004, Oribacterium sp. CM12,Oribacterium sp. oral taxon 078, Oribacterium sp. oral taxon 102,Oribacterium sp. oral taxon 108, Parabacteroides distasonis,Parabacteroides faecis, Parabacteroides goldsteinii, Parabacteroidesgordonii, Parabacteroides johnsonii, Parabacteroides merdae,Parascardovia denticolens, Parasutterella excrementihominis, Parvimonasmicra, Parvimonas sp. oral taxon 393, Peptococcus sp. oral taxon 168,Peptoniphilus sp. 2002-2300004, Peptoniphilus sp. gpac018A,Peptostreptococcus stomatis, Phascolarctobacterium faecium,Phascolarctobacterium sp. 377, Phascolarctobacterium succinatutens,Porphyromonas bennonis, Porphyromonas catoniae, Porphyromonasendodontalis, Porphyromonas gingivalis, Porphyromonas uenonis,Prevotella aurantiaca, Prevotella bivia, Prevotella disiens, Prevotellaintermedia, Prevotella nanceiensis, Prevotella nigrescens, Prevotellaoralis, Prevotella oris, Prevotella oulorum, Prevotella pallens,Prevotella sp. WAL 2039G, Prevotella sp. oral taxon 299, Prevotella sp.oral taxon G60, Propionibacterium sp. MSP09A, Pseudomonas sp. KB23,Pseudopropionibacterium propionicum, Rhizobium sp. T45, Robinsoniellasp. KNHs210, Rodentibacter pneumotropicus, Roseburia faecis, Roseburiahominis, Roseburia intestinalis, Roseburia inulinivorans, Roseburia sp.11SE39, Rothia aeria, Rothia dentocariosa, Rothia mucilaginosa, Rothiasp. CCUG 25688, Rothia sp. THG-N7, Scardovia wiggsiae, Selenomonasgenomosp. P5, Selenomonas sp. CM52, Shuttleworthia sp. oral taxon G69,Slackia sp. NATTS, Solobacterium moorei, Solobacterium sp. S4-A19,Staphylococcus epidermidis, Staphylococcus sp. 334802, Staphylococcussp. C9I2, Stomatobaculum longum, Streptococcus dentirousetti,Streptococcus gordonii, Streptococcus infantis, Streptococcusintermedius, Streptococcus mitis, Streptococcus mutans, Streptococcusparasanguinis, Streptococcus peroris, Streptococcus sp. 11aTha1,Streptococcus sp. 2011_Oral_MS_A3, Streptococcus sp. 2011_Oral_MS_H4,Streptococcus sp. BS35a, Streptococcus sp. GMD6S, Streptococcus sp. oraltaxon G59, Streptococcus sp. oral taxon G63, Streptococcus thermophilus,Subdoligranulum variabile, Sutterella stercoricanis, Sutterellawadsworthensis, Tannerella forsythia, Tannerella sp. oral taxon HOT-286,Terrisporobacter glycolicus, Tessaracoccus lapidicaptus, Vagococcus sp.SIX2(2011), Varibaculum cambriense, Veillonella atypica, Veillonelladispar, Veillonella parvula, Veillonella rogosae, Veillonella sp.2011_Oral_VSA_B12, Veillonella sp. 2011_Oral_VSA_D3, Veillonella sp.6_1_27, Veillonella sp. CM60, Veillonella sp. JL-2, Veillonella sp. oraltaxon 780, Veillonella tobetsuensis, [Collinsella] massiliensis,Abiotrophia, Acetitomaculum, Achromobacter, Actinobacillus, Actinomyces,Aerococcus, Aggregatibacter, Akkermansia, Alistipes, Alloprevotella,Alloscardovia, Alysiella, Anaerobacillus, Anaerococcus, Anaeroglobus,Anaeroplasma, Anaerosporobacter, Anaerostipes, Anaerotruncus,Anaerovorax, Asaccharospora, Atopobium, Barnesiella, Bergeriella,Bergeyella, Bifidobacterium, Bilophila, Blautia, Brevundimonas,Butyricimonas, Butyrivibrio, Campylobacter, Candidatus Saccharimonas,Candidatus Soleaferrea, Capnocytophaga, Cardiobacterium,Catenibacterium, Catonella, Centipeda, Chryseobacterium, Clostridium,Collinsella, Comamonas, Coprobacter, Corynebacterium, Cryptobacterium,Delftia, Desulfobulbus, Dialister, Dolosigranulum, Dorea, Eggerthella,Eggerthia, Eikenella, Eisenbergiella, Enterococcus, Enterorhabdus,Erysipelatoclostridium, Faecalibacterium, Fibrobacter, Filifactor,Finegoldia, Flavobacterium, Flavonifractor, Fretibacterium,Fusicatenibacter, Fusobacterium, Gardnerella, Gemella, Gordonibacter,Granulicatella, Haemophilus, Herbaspirillum, Howardella,Intestinibacter, Intestinimonas, Johnsonella, Kingella, Kluyvera,Lachnoanaerobaculum, Lachnospira, Lactobacillus, Lautropia,Leptotrichia, Marvinbryantia, Megamonas, Megasphaera,Methanobrevibacter, Methanosphaera, Methylobacterium, Mogibacterium,Moraxella, Moryella, Mycobacterium, Neisseria, Odoribacter, Olsenella,Oribacterium, Oscillibacter, Oscillospira, Pantoea, Parabacteroides,Paraprevotella, Parascardovia, Parasporobacterium, Parasutterella,Parvimonas, Pasteurella, Peptoclostridium, Peptococcus,Peptostreptococcus, Porphyromonas, Prevotella, Propionibacterium,Pseudobutyrivibrio, Rhizobium, Roseburia, Rothia, Sarcina, Scardovia,Selenomonas, Shuttleworthia, Solobacterium, Sphingomonas,Staphylococcus, Stomatobaculum, Streptococcus, Subdoligranulum,Sutterella, Tannerella, Terrisporobacter, Tessaracoccus, Vagococcus,Veillonella, Victivallis.
 29. The method of claim 12, wherein the firstsleep-related condition comprises a shift work condition, whereindetermining user microbiome features comprises determining the usermicrobiome composition features comprising a set of composition featuresassociated with a nose site and with at least one of: Abiotrophiadefectiva, Achromobacter xylosoxidans, Acidovorax sp. LR05,Acinetobacter radioresistens, Acinetobacter sp. 423D, Acinetobacter sp.C-S-NA3, Acinetobacter sp. HD5.2, Acinetobacter sp. RBE2CD-114,Acinetobacter sp. WB22-23, Acinetobacter ursingii, Actinobacillusporcinus, Actinomyces dentalis, Actinomyces europaeus, Actinomycesgenomosp. C1, Actinomyces georgiae, Actinomyces graevenitzii,Actinomyces israelii, Actinomyces neuii, Actinomyces odontolyticus,Actinomyces radingae, Actinomyces sp. ICM54, Actinomyces sp. ICM58,Actinomyces sp. S4-C9, Actinomyces sp. oral taxon 175, Actinomycesviscosus, Actinotignum schaalii, Aerococcus christensenii, Aerococcussp. B43(2010), Aerococcus urinae, Aerococcus viridans, Aeromonassalmonicida, Aeromonas sp. B11, Aerosphaera taetra, Aggregatibacteraphrophilus, Aggregatibacter segnis, Akkermansia muciniphila,Albidovulum inexpectatum, Alistipes finegoldii, Alistipes putredinis,Alkalibacterium sp. I-5, Alkanindiges illinoisensis, Alloiococcusotitis, Alloprevotella rava, Alloprevotella tannerae, Anaerobacillusalkalidiazotrophicus, Anaerococcus lactolyticus, Anaerococcus murdochii,Anaerococcus octavius, Anaerococcus provencensis, Anaerococcus sp.8404299, Anaerococcus sp. 8405254, Anaerococcus sp. 9401487,Anaerococcus sp. PH9, Anaerococcus sp. S8 87-3, Anaerococcus sp. S8 F2,Anaerococcus tetradius, Anaerococcus vaginalis, Anaerostipes sp.5_1_63FAA, Aquabacterium sp. Aqua2, Atopobium sp. S3MV26, Atopobium sp.S3PFAA1-4, Atopobium sp. S4-A11a, Bacillus cereus, Bacilluspseudofirmus, Bacillus sp. T41, Bacteroides dorei, Bacteroides sp. AR20,Bacteroides sp. AR29, Bacteroides sp. J1511, Bacteroides vulgatus,Bergeyella sp. AF14, Bergeyella zoohelcum, Bifidobacterium bifidum,Bifidobacterium longum, Bifidobacterium sp., Bifidobacterium stercoris,Blastococcus aggregatus, Blautia faecis, Blautia luti, Blautia wexlerae,Bosea sp. R-46060, Brachybacterium faecium, Brachybacterium muris,Bradyrhizobium sp. 68A4SAPT, Bradyrhizobium sp. CCBAU 53380,Bradyrhizobium sp. MG-2011-42-CD, Brevibacterium massiliense,Brevibacterium paucivorans, Brevibacterium ravenspurgense,Brevibacterium sp. MBTD_CMFRI_Br02, Brevundimonas diminuta,Brevundimonas sp. FXJ8.080, Brevundimonas sp. JW23.4a, Brevundimonas sp.V3M6, Brevundimonas sp. a101-97, Brochothrix thermosphacta, Burkholderiasp. CBPB-HIM, Campylobacter sputorum, Campylobacter ureolyticus,Capnocytophaga cynodegmi, Capnocytophaga gingivalis, Capnocytophagagranulosa, Capnocytophaga sp. oral taxon 329, Capnocytophaga sputigena,Cardiobacterium hominis, Caulobacter sp., Centipeda periodontii,Chryseobacterium anthropi, Chryseobacterium sp. IIL-Nv8,Chryseobacterium sp. PYR2, Chryseobacterium sp. Y1D, Citrobacter sp.BW4, Collinsella aerofaciens, Corynebacterium argentoratense,Corynebacterium atypicum, Corynebacterium canis, Corynebacteriumcaspium, Corynebacterium diphtheriae, Corynebacterium durum,Corynebacterium freiburgense, Corynebacterium glucuronolyticum,Corynebacterium mastitidis, Corynebacterium matruchotii, Corynebacteriumsp., Corynebacterium sp. 713182/2012, Corynebacterium sp. NML 97-0186,Corynebacterium sp. NML96-0085, Corynebacterium sp. jw37,Corynebacterium spheniscorum, Corynebacterium ulcerans, Curvibactergracilis, Cutibacterium acnes, Cutibacterium avidum, Cutibacteriumgranulosum, Deinococcus sp. UAC-77, Deinococcus taklimakanensis, Delftialacustris, Delftia sp. BN-SKY3, Dermabacter hominis, Dermabacter sp.HFH0086, Dermacoccus sp. Ellin183, Dermacoccus sp. SST-20, Dialisterinvisus, Dialister micraerophilus, Dialister propionicifaciens,Dialister sp. E2_20, Dialister succinatiphilus, Dolosigranulum pigrum,Dorea formicigenerans, Dorea longicatena, Enterobacter cloacae,Enterobacter sp. BS2-1, Enterococcus faecalis, Enterococcus sp. SI-4,Eremococcus coleocola, Facklamia hominis, Facklamia languida, Facklamiasp. 1440-97, Facklamia sp. 164-92, Faecalibacterium prausnitzii,Fastidiosipila sanguinis, Finegoldia magna, Finegoldia sp. S8 F7,Finegoldia sp. S9 AA1-5, Flavobacterium johnsoniae, Flavobacteriumrivuli, Flavobacterium sp. CS43, Flavobacterium sp. EP372,Flavobacterium sp. ICM 1082, Fusicatenibacter saccharivorans,Fusobacterium nucleatum, Fusobacterium periodonticum, Fusobacterium sp.ACB2, Fusobacterium sp. CM21, Fusobacterium sp. CM22, Fusobacterium sp.OBRC1, Gardnerella sp. S3PF20, Gardnerella vaginalis, Gemellamorbillorum, Gemella sp. 933-88, Globicatella sanguinis, Granulicatellaadiacens, Granulicatella elegans, Haemophilus influenzae, Haemophilusparainfluenzae, Halomonas sp. VS-102, Helcococcus sueciensis,Jonquetella anthropi, Klebsiella sp. B12, Kluyvera georgiana, Kocuriarhizophila, Kocuria sp. LW2-LEVI2-W, Kocuria sp. M1-36, Kocuria sp.M2T9B2, Kocuria sp. PDM-7, Kytococcus sp. YB227, Lachnoanaerobaculumsaburreum, Lachnospira pectinoschiza, Lactobacillus crispatus,Lactobacillus curvatus, Lactobacillus iners, Lactobacillus plantarum,Lactobacillus reuteri, Lactobacillus rhamnosus, Lactobacillussalivarius, Lactobacillus sp. 7_1_47FAA, Lactobacillus sp. TAB-26,Lactococcus lactis, Lactococcus sp. MH5-2, Lautropia sp. TeTO,Leptotrichia buccalis, Leptotrichia hongkongensis, Leptotrichia sp.PTE15, Leptotrichia sp. oral taxon 225, Leptotrichia wadei, Leuconostoclactis, Luteimonas aestuarii, Lysinibacillus sp. SJ2SN2, Lysinibacillussphaericus, Massilia oculi, Massilia sp. hp37, Megasphaeramicronuciformis, Megasphaera sp. UPII 199-6, Mesorhizobium loti,Mesorhizobium sp. mat916, Methylobacterium adhaesivum, Methylobacteriumsp. CBMB45, Methylobacterium sp. JC86, Methylobacterium sp. RK-200008-1,Microbacterium lacticum, Microbacterium sp. PcRB024, Microbacteriumxylanilyticum, Micrococcus luteus, Micrococcus sp. WB18-01, Mobiluncusmulieris, Mogibacterium pumilum, Moraxella caprae, Moraxellacatarrhalis, Moraxella lincolnii, Moraxella sp., Moraxella sp.BBN2P-02d, Moraxella sp. WB19-16, Morganella morganii, Murdochiella sp.S9 PR-10, Mycobacterium chelonae, Negativicoccus sp. S5-A15,Negativicoccus succinicivorans, Neisseria canis, Neisseria elongata,Neisseria macacae, Neisseria mucosa, Neisseria oralis, Neisseriaskkuensis, Nesterenkonia sp. JS3, Nosocomiicoccus ampullae, Ochrobactrumsp. LC498, Ochrobactrum sp. SCTS14, Ochrobactrum tritici, Odoribactersplanchnicus, Pantoea vagans, Pedobacter heparinus, Pelomonas aquatica,Peptococcus sp. oral taxon 168, Peptoniphilus coxii, Peptoniphilusduerdenii, Peptoniphilus lacrimalis, Peptoniphilus sp. 1-14,Peptoniphilus sp. 2002-2300004, Peptoniphilus sp. 2002-38328,Peptoniphilus sp. 7-2, Peptoniphilus sp. DNF00840, Peptoniphilus sp. JCM8143, Peptoniphilus sp. S9 PR-13, Peptoniphilus sp. gpac018A,Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon 375,Peptoniphilus sp. oral taxon 836, Peptostreptococcus anaerobius,Peptostreptococcus stomatis, Peredibacter starrii, Phyllobacterium sp.T50, Porphyrobacter sp. NMC22, Porphyromonas asaccharolytica,Porphyromonas bennonis, Porphyromonas catoniae, Porphyromonasendodontalis, Porphyromonas somerae, Prevotella bivia, Prevotellabuccalis, Prevotella disiens, Prevotella nanceiensis, Prevotellanigrescens, Prevotella oris, Prevotella oulorum, Prevotella pallens,Prevotella sp. S4-10, Prevotella timonensis, Propionibacterium sp.KPL1844, Propionibacterium sp. KPL2005, Propionibacterium sp. MSP09A,Propionibacterium sp. V07/12348, Propionimicrobium lymphophilum,Pseudochrobactrum sp. a001-58, Pseudoclavibacter bifida,Pseudoclavibacter sp. Timone, Pseudoglutamicibacter albus, Pseudomonasaeruginosa, Pseudomonas agarici, Pseudomonas brenneri, Pseudomonasmonteilii, Pseudomonas sp. CBMAI 1177, Pseudomonas sp. DQ-01,Pseudomonas sp. G1116, Pseudomonas sp. GmFRB014, Pseudomonas sp.GmFRB023, Pseudomonas sp. KB23, Pseudomonas sp. PDD-27b-3, Pseudomonassp. PcFRB100, Pseudomonas sp. a101-18-2, Pseudomonas sp. a111-5,Pseudomonas syringae, Pseudonocardia sp. MB03-A, Rahnella sp. BSP18,Ralstonia sp. A52, Ralstonia sp. S2.MAC.005, Rhizobium etli, Rhizobiumsp. 10II, Rhizobium sp. T45, Rhodococcus erythropolis, Rhodopseudomonasboonkerdii, Roseburia faecis, Roseburia intestinalis, Roseburiainulinivorans, Roseburia sp. 11SE39, Rothia aeria, Rothia dentocariosa,Rothia sp. BBH4, Rothia sp. THG-N7, Shewanella sp. bk_8, Shinella sp.DR33, Solanum lycopersicum, Solobacterium moorei, Sphingobacterium sp.KB45, Sphingobium sp. LC341, Sphingobium yanoikuyae, Sphingomonasaerolata, Sphingomonas aquatilis, Sphingomonas oligophenolica,Sphingomonas sp. 24T, Sphingomonas sp. 540, Sphingomonas sp. KOPRI25661, Sphingomonas sp. PDD-26b-16, Staphylococcus aureus,Staphylococcus equorum, Staphylococcus saprophyticus, Staphylococcus sp.334802, Staphylococcus sp. C9I2, Staphylococcus sp. L10, Staphylococcussp. WB18-16, Staphylococcus vitulinus, Stenotrophomonas sp. C-S-TSA3,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. N017, Stenotrophomonassp. Z2-S2, Stomatobaculum longum, Streptococcus oralis, Streptococcusparasanguinis, Streptococcus peroris, Streptococcus pneumoniae,Streptococcus sobrinus, Streptococcus sp. 11aTha1, Streptococcus sp.2011_Ileo_MS_A10, Streptococcus sp. 2011_Oral_MS_A3, Streptococcus sp.BS35a, Streptococcus sp. oral taxon G59, Streptococcus thermophilus,Subdoligranulum variabile, Tannerella forsythia, Tessaracoccus sp.SL014B-79A, Trueperella bernardiae, Turicella otitidis, Turicibactersanguinis, Varibaculum cambriense, Varibaculum sp. CCUG 45114,Variovorax sp. MM43Nov, Veillonella atypica, Veillonella parvula,Veillonella rogosae, Veillonella seminalis, Veillonella sp. AS16,Veillonella sp. CM60, Veillonella sp. oral taxon 780, Weissella confusa,Xenophilus sp. XB36, Yersinia enterocolitica Abiotrophia, Achromobacter,Acidovorax, Acinetobacter, Actinobacillus, Actinobaculum, Actinomyces,Aerococcus, Aeromonas, Aerosphaera, Aggregatibacter, Akkermansia,Albidovulum, Alistipes, Alkalibacterium, Alkanindiges, Alloiococcus,Alloprevotella, Anaerobacillus, Anaerococcus, Anaerostipes,Anaerotruncus, Aquabacterium, Arthrobacter, Bacillus, Bacteroides,Bergeyella, Blautia, Bordetella, Bosea, Brachybacterium, Brachymonas,Bradyrhizobium, Brevibacterium, Brevundimonas, Brochothrix,Campylobacter, Candidatus Saccharimonas, Candidatus Xiphinematobacter,Capnocytophaga, Cardiobacterium, Caulobacter, Centipeda,Chryseobacterium, Citrobacter, Clostridium, Collinsella,Conchiformibius, Corynebacterium, Curvibacter, Cutibacterium,Defluviimnas, Deinococcus, Delftia, Dermabacter, Dermacoccus, Dialister,Dolosigranulum, Dorea, Duganella, Dyadobacter, Enterobacter,Enterococcus, Epilithonimonas, Eremococcus, Erysipelao stridium,Facklamia, Faecalibacterium, Ferruginibacter, Finegoldia,Flavobacterium, Flavonifractor, Fusibacter, Fusicatenibacter,Fusobacterium, Gardnerella, Gemella, Globicatella, Granulicatella,Haemophilus, Halomonas, Helcococcus, Herbaspirillum, Hymenobacter,Intestinibacter, Janthinobacterium, Jonquetella, Klebsiella, Kluyvera,Kocuria, Kytococcus, Lachnoanaerobaculum, Lachnospira, Lactobacillus,Lactococcus, Lautropia, Leptotrichia, Leucobacter, Leuconostoc,Lysinibacillus, Massilia, Megasphaera, Mesorhizobium, Methylobacterium,Microbacterium, Micrococcus, Mogibacterium, Moraxella, Morganella,Moryella, Murdochiella, Myroides, Negativicoccus, Neisseria,Nesterenkonia, Nosocomiicoccus, Novosphingobium, Ochrobactrum,Odoribacter, Oribacterium, Pantoea, Parvimonas, Pelomonas, Peptococcus,Peptoniphilus, Peptostreptococcus, Peredibacter, Phyllobacterium,Porphyrobacter, Porphyromonas, Prevotella, Propionibacterium,Propionimicrobium, Proteus, Pseudobutyrivibrio, Pseudochrobactrum,Pseudoclavibacter, Pseudomonas, Pseudonocardia, Ralstonia, Rhizobium,Rhodobacter, Rhodococcus, Rhodopseudomonas, Roseburia, Rothia,Rubellimicrobium, Sarcina, Shewanella, Shinella, Shuttleworthia,Solanum, Solirubrobacter, Solobacterium, Sphingobium, Sphingomonas,Staphylococcus, Stenotrophomonas, Stomatobaculum, Streptococcus,Subdoligranulum, Tessaracoccus, Thalassospira, Trueperella, Turicella,Turicibacter, Varibaculum, Variovorax, Veillonella, Xenophilus,Yersinia.
 30. The method of claim 12, wherein the first sleep-relatedcondition comprises a shift work condition, wherein determining usermicrobiome features comprises determining the user microbiomecomposition features comprising a set of composition features associatedwith a skin site and with at least one of: Achromobacter xylosoxidans,Acinetobacter baumannii, Acinetobacter kyonggiensis, Acinetobacterradioresistens, Acinetobacter sp. C-S-NA3, Acinetobacter sp. C049,Acinetobacter sp. HD5.2, Acinetobacter sp. RBE2CD-114, Acinetobacter sp.RBE2CD-76, Acinetobacter sp. T133, Acinetobacter sp. WB22-23,Acinetobacter ursingii, Actinobacillus porcinus, Actinomyces dentalis,Actinomyces genomosp. C1, Actinomyces georgiae, Actinomycesgerencseriae, Actinomyces neuii, Actinomyces odontolyticus, Actinomycesradingae, Actinomyces sp. ICM54, Actinomyces sp. oral taxon 175,Actinomyces sp. oral taxon 448, Actinomyces viscosus, Aerococcuschristensenii, Aeromonas salmonicida, Aerosphaera taetra, Alistipesputredinis, Anaerobacillus alkalidiazotrophicus, Anaerococcushydrogenalis, Anaerococcus lactolyticus, Anaerococcus murdochii,Anaerococcus octavius, Anaerococcus prevotii, Anaerococcus provencensis,Anaerococcus sp. 8404299, Anaerococcus sp. 8405254, Anaerococcus sp.9401487, Anaerococcus sp. PH9, Anaerococcus sp. S8 87-3, Anaerococcussp. S9 PR-16, Anaerococcus tetradius, Anaerostipes sp. 5_1_63FAA,Aureimonas phyllosphaerae, Bacillus megaterium, Bacillus pseudofirmus,Bacillus safensis, Bacillus sp. T41, Bacteroides acidifaciens,Bacteroides caccae, Bacteroides sp. AR20, Bacteroides sp. AR29,Bacteroides sp. EBA5-17, Bacteroides sp. J1511, Bacteroides stercoris,Bacteroides uniformis, Bacteroides vulgatus, Blastocatella fastidiosa,Blastococcus aggregatus, Blautia faecis, Blautia luti, Blautia wexlerae,Bosea sp. B0.09-49, Brachybacterium muris, Bradyrhizobium sp. 68A4SAPT,Bradyrhizobium sp. CCBAU 53380, Brevibacterium paucivorans,Brevibacterium ravenspurgense, Brevundimonas diminuta, Brevundimonas sp.FXJ8.080, Brevundimonas sp. JW23.4a, Brevundimonas sp. V3M6,Campylobacter ureolyticus, Centipeda periodontii, Chryseobacterium sp.R064, Chryseobacterium sp. R31, Chryseobacterium sp. SOZ3-3181,Chryseomicrobium imtechense, Citrobacter sp. BW4, Cloacibacteriumnormanense, Collinsella aerofaciens, Comamonas jiangduensis, Comamonassp. HM_AF10, Corynebacterium argentoratense, Corynebacterium canis,Corynebacterium capitovis, Corynebacterium diphtheriae, Corynebacteriumdurum, Corynebacterium epidermidicanis, Corynebacterium felinum,Corynebacterium freiburgense, Corynebacterium glucuronolyticum,Corynebacterium mastitidis, Corynebacterium matruchotii, Corynebacteriumsp., Corynebacterium sp. NML 97-0186, Corynebacterium sp. jw37,Corynebacterium spheniscorum, Cutibacterium acnes, Cutibacterium avidum,Cutibacterium granulosum, Delftia lacustris, Delftia sp. BN-SKY3,Dermabacter hominis, Dermabacter sp. HFH0086, Dermacoccus sp. Ellin183,Dermacoccus sp. SST-20, Dialister propionicifaciens, Dietzia cinnamea,Dietzia sp. ISA13, Dolosigranulum pigrum, Dorea formicigenerans, Dorealongicatena, Elizabethkingia meningoseptica, Enterobacter cloacae,Exiguobacterium sp. icr3, Facklamia sp. 164-92, Facklamia tabacinasalis,Faecalibacterium prausnitzii, Faecalibacterium sp. canine oral taxon147, Fastidiosipila sanguinis, Finegoldia magna, Finegoldia sp. BV3C29,Finegoldia sp. S9 AA1-5, Flavobacterium lindanitolerans, Flavobacteriumqiangtangense, Flavobacterium sp. CS43, Fusicatenibacter saccharivorans,Fusobacterium nucleatum, Fusobacterium sp. ACB2, Gaiella occulta,Gardnerella vaginalis, Gemella morbillorum, Gemella sp. 933-88,Geobacillus stearothermophilus, Globicatella sanguinis, Gordonia terrae,Granulicatella adiacens, Haemophilus influenzae, Haemophilusparainfluenzae, Helcococcus sueciensis, Herbaspirillum huttiense,Klebsiella sp. B12, Kluyvera georgiana, Kocuria marina, Kocuriarhizophila, Lachnoanaerobaculum saburreum, Lachnospira pectinoschiza,Lactobacillus crispatus, Lactobacillus fornicalis, Lactobacillus iners,Lactobacillus sp. 7_1_47FAA, Leptotrichia hofstadii, Leptotrichia wadei,Lysinibacillus sp. SJ2SN2, Lysinibacillus sphaericus, Lysobacterbrunescens, Malassezia restricta, Marmoricola aurantiacus, Massilia sp.S5-252-1, Massilia sp. TMT4-34, Massilia sp. hp37, Megasphaera sp. UPII199-6, Meiothermus silvanus, Mesorhizobium loti, Mesorhizobium sp.mat916, Methylobacterium adhaesivum, Methylobacterium sp. 399,Methylobacterium sp. 57, Methylobacterium sp. CBMB45, Methylobacteriumsp. Gh-143, Methylobacterium sp. RK-2008-1, Microbacterium lacticum,Microbacterium paraoxydans, Microbacterium sp. GGC-P2D, Microbacteriumsp. absalar, Microbacterium yannicii, Micrococcus luteus, Micrococcussp. WB18-01, Moraxella catarrhalis, Moraxella nonliquefaciens,Morganella morganii, Mycobacterium sp. 18 GUW, Mycobacterium sp. C0183,Mycobacterium sp. UNC410CL29Cvi84, Negativicoccus sp. S5-A15, Neisseriamacacae, Neisseria mucosa, Novosphingobium sp. THA_AIK7, Nubsellazeaxanthinifaciens, Ochrobactrum sp. LC498, Ochrobactrum sp. SCTS14,Odoribacter splanchnicus, Pantoea vagans, Parabacteroides distasonis,Parasutterella excrementihominis, Parvimonas micra, Paucibacter sp. 186,Pelomonas aquatica, Peptococcus sp. S9 Pr-12, Peptoniphilus lacrimalis,Peptoniphilus sp. 2002-2300004, Peptoniphilus sp. 2002-38328,Peptoniphilus sp. 7-2, Peptoniphilus sp. BV3AC2, Peptoniphilus sp.DNF00192, Peptoniphilus sp. S9 PR-13, Peptoniphilus sp. gpac018A,Peptoniphilus sp. gpac148, Peptoniphilus sp. oral taxon 375,Peptostreptococcus anaerobius, Phascolarctobacterium faecium,Phyllobacterium sp. T50, Porphyromonas asaccharolytica, Porphyromonasbennonis, Porphyromonas somerae, Porphyromonas sp. 2024b, Prevotellabuccalis, Prevotella disiens, Prevotella oulorum, Propionibacterium sp.KPL1844, Propionibacterium sp. KPL2005, Propionibacterium sp. MSP09A,Propionibacterium sp. V07/12348, Propionimicrobium lymphophilum,Pseudoclavibacter sp. Timone, Pseudoglutamicibacter albus, Pseudomonascitronellolis, Pseudomonas monteilii, Pseudomonas sp. DQ-01, Pseudomonassp. G1116, Pseudomonas sp. KB23, Pseudomonas sp. KVS86, Pseudomonas sp.PDD-27b-3, Pseudomonas sp. PKG89, Pseudomonas sp. PcFRB072, Pseudomonassp. PcFRB119, Pseudomonas sp. a101-18-2, Pseudomonas sp. a111-5,Pseudonocardia sp. ARG1, Psychrobacter sp. S1-1, Ralstonia sp. A52,Ralstonia sp. S2.MAC.005, Rhizobium etli, Rhizobium nepotum, Rhizobiumsp. 10II, Rhizobium sp. T45, Rhizobium sp. sc-w, Rhodococcuserythropolis, Roseburia faecis, Roseburia intestinalis, Roseburia sp.11SE39, Roseomonas cervicalis, Rothia dentocariosa, Rothia mucilaginosa,Rothia sp. THG-N7, Salinibacterium sp. MDT1-9-1, Selenomonas genomosp.P5, Shinella sp. DR33, Skermanella aerolata, Solanum lycopersicum,Solirubrobacter sp. Gsoil 921, Solobacterium moorei, Sphingobacteriumsp. HTc4-a, Sphingobium sp. LC341, Sphingomonas aerolata, Sphingomonasanadarae, Sphingomonas mathurensis, Sphingomonas sp. 540, Sphingomonassp. DS-3PS-11, Sphingomonas sp. HEXBA01, Sphingomonas sp. KOPRI 25661,Sphingomonas sp. URHD0057, Staphylococcus aureus, Staphylococcusepidermidis, Staphylococcus saprophyticus, Staphylococcus sp. 334802,Staphylococcus sp. C-D-MA2, Staphylococcus sp. C9I2, Staphylococcus sp.FXY54, Stenotrophomonas pavanii, Stenotrophomonas sp. C-S-TSA3,Stenotrophomonas sp. I_35-G5PA9A1, Stenotrophomonas sp. I_63-LFP1A9B1,Stenotrophomonas sp. KITS-1, Stenotrophomonas sp. N017, Stomatobaculumlongum, Streptococcus gordonii, Streptococcus parasanguinis,Streptococcus peroris, Streptococcus sobrinus, Streptococcus sp.11aTha1, Streptococcus sp. BS35a, Streptococcus sp. oral taxon G59,Streptococcus thermophilus, Subdoligranulum variabile, Tessaracoccus sp.SL014B-79A, Trueperella bernardiae, Turicella otitidis, Varibaculum sp.CCUG 45114, Veillonella parvula, Veillonella sp. 2011_Oral_VSA_D3,Veillonella sp. CM60, Veillonella sp. MSA12, Veillonella sp. oral taxon780, Acidothermus, Acidovorax, Acinetobacter, Actinobacillus,Actinobaculum, Actinomyces, Actinomycetospora, Aerococcus, Aeromonas,Aerosphaera, Aggregatibacter, Akkermansia, Alistipes, Aloprevotella,Amnibacterium, Anaerobacillus, Anaerococcus, Anaerostipes,Anaerotruncus, Arcanobacterium, Aurantimonas, Azospira, Bacillus,Bacteroides, Bifidobacterium, Blastocatella, Blautia, Bosea,Brachybacterium, Bradyrhizobium, Brevibacterium, Brevundimonas,Bryobacter, Butyricimonas, Campylobacter, Capnocytophaga, Caulobacter,Cellulosimicrobium, Centipeda, Chryseobacterium, Chryseomicrobium,Citrobacter, Clostridium, Collinsella, Comamonas, Corynebacterium,Cutibacterium, Defluviimonas, Deinococcus, Delftia, Dermabacter,Dermacoccus, Dialister, Dietzia, Dolosigranulum, Dorea, Dyadobacter,Elizabethkingia, Enterobacter, Enterococcus, Erysipelatoclostridium,Exiguobacterium, Facklamia, Faecalibacterium, Fastidiosipila,Ferruginibacter, Finegoldia, Flavobacterium, Flavonifractor, Fluviicola,Frigoribacterium, Fusicatenibacter, Fusobacterium, Gaiella, Gallicola,Gardnerella, Gemella, Gemmata, Gemmatimonas, Geobacillus, Globicatella,Granulicatella, Granulicella, Haemophilus, Halomonas, Helcococcus,Herbaspirillum, Hymenobacter, Intestinibacter, Janthinobacterium,Jatrophihabitans, Johnsonella, Klebsiella, Kluyvera, Kocuria, Kurthia,Lachnospira, Lactobacillus, Lactococcus, Leptotrichia, Leucobacter,Leuconostoc, Lysinibacillus, Lysobacter, Malassezia, Marmoricola,Massilia, Meiothermus, Mesorhizobium, Methylobacterium, Microbacterium,Micrococcus, Microlunatus, Morganella, Moryella, Murdochiella,Mycobacterium, Negativicoccus, Neisseria, Nocardioides, Novosphingobium,Nubsella, Ochrobactrum, Odoribacter, Paenibacillus, Pantoea,Parabacteroides, Parasutterella, Parvimonas, Patulibacter, Paucibacter,Pelomonas, Peptoclostridium, Peptoniphilus, Peptostreptococcus,Phascolarctobacterium, Phyllobacterium, Porphyromonas, Prevotella,Propionibacterium, Proteus, Pseudobutyrivibrio, Pseudoclavibacter,Pseudolabrys, Pseudomonas, Pseudonocardia, Ralstonia, Raoultella,Rhizobium, Rhodococcus, Rhodoplanes, Roseburia, Roseomonas, Rothia,Rubellimicrobium, Rummeliibacillus, Salinibacterium, Sarcina,Selenomonas, Serratia, Shewanella, Shuttleworthia, Skermanella, Solanum,Solirubrobacter, Solobacterium, Sphingobacterium, Staphylococcus,Stenotrophomonas, Stomatobaculum, Streptococcus, Streptomyces,Subdoligranulum, Sutterella, Terrisporobacter, Tessaracoccus, Truepera,Trueperella, Turicella, Variovorax, Veillonella, Weissella, Xanthomonas,Zymomonas.